Search results for the GEO ID: GSE8978  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM227536 | GPL1355 |
|
Seminiferous Tubules Stage I Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stage I
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227536
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227536/suppl/GSM227536.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227537 | GPL1355 |
|
Seminiferous Tubules Stage I Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stage I
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227537
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227537/suppl/GSM227537.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227538 | GPL1355 |
|
Seminiferous Tubules Stage I Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stage I
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227538
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227538/suppl/GSM227538.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227539 | GPL1355 |
|
Seminiferous Tubules Stage I Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stage I
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227539
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227539/suppl/GSM227539.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227540 | GPL1355 |
|
Seminiferous Tubules Stage I Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stage I
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227540
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227540/suppl/GSM227540.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227541 | GPL1355 |
|
Seminiferous Tubules Stage (II-III) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stages II-III
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227541
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227541/suppl/GSM227541.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227542 | GPL1355 |
|
Seminiferous Tubules Stage (II-III) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stages II-III
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227542
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227542/suppl/GSM227542.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227543 | GPL1355 |
|
Seminiferous Tubules Stage (II-III) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stages II-III
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227543
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227543/suppl/GSM227543.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227544 | GPL1355 |
|
Seminiferous Tubules Stage (II-III) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stages II-III
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227544
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227544/suppl/GSM227544.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227545 | GPL1355 |
|
Seminiferous Tubules Stage (II-III) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stages II-III
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227545
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227545/suppl/GSM227545.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227546 | GPL1355 |
|
Seminiferous Tubules Stage (IV-V) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stages IV-V
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227546
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227546/suppl/GSM227546.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227547 | GPL1355 |
|
Seminiferous Tubules Stage (IV-V) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stages IV-V
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227547
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227547/suppl/GSM227547.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227548 | GPL1355 |
|
Seminiferous Tubules Stage (IV-V) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stages IV-V
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227548
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227548/suppl/GSM227548.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227549 | GPL1355 |
|
Seminiferous Tubules Stage (IV-V) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stages IV-V
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227549
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227549/suppl/GSM227549.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227550 | GPL1355 |
|
Seminiferous Tubules Stage (VI) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stage VI
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227550
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227550/suppl/GSM227550.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227551 | GPL1355 |
|
Seminiferous Tubules Stage (VI) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stage VI
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227551
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227551/suppl/GSM227551.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227552 | GPL1355 |
|
Seminiferous Tubules Stage (VI) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stage VI
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227552
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227552/suppl/GSM227552.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227553 | GPL1355 |
|
Seminiferous Tubules Stage (VI) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stage VI
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227553
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227553/suppl/GSM227553.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227554 | GPL1355 |
|
Seminiferous Tubules Stage (VI) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stage VI
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227554
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227554/suppl/GSM227554.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227555 | GPL1355 |
|
Seminiferous Tubules Stage (VIIa.b) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stage VIIa.b
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227555
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227555/suppl/GSM227555.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227556 | GPL1355 |
|
Seminiferous Tubules Stage (VIIa.b) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stage VIIa.b
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227556
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227556/suppl/GSM227556.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227557 | GPL1355 |
|
Seminiferous Tubules Stage (VIIa.b) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stage VIIa.b
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227557
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227557/suppl/GSM227557.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227558 | GPL1355 |
|
Seminiferous Tubules Stage (VIIa.b) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stage VIIa.b
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227558
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227558/suppl/GSM227558.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227559 | GPL1355 |
|
Seminiferous Tubules Stage (VIIa.b) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stage VIIa.b
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227559
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227559/suppl/GSM227559.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227560 | GPL1355 |
|
Seminiferous Tubules Stage (VIIc.d) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stage VIIc.d
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227560
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227560/suppl/GSM227560.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227561 | GPL1355 |
|
Seminiferous Tubules Stage (VIIc.d) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stage VIIc.d
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227561
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227561/suppl/GSM227561.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227562 | GPL1355 |
|
Seminiferous Tubules Stage (VIIc.d) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stage VIIc.d
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227562
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227562/suppl/GSM227562.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227563 | GPL1355 |
|
Seminiferous Tubules Stage (VIIc.d) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stage VIIc.d
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227563
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227563/suppl/GSM227563.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227564 | GPL1355 |
|
Seminiferous Tubules Stage (VIIc.d) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stage VIIc.d
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227564
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227564/suppl/GSM227564.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227565 | GPL1355 |
|
Seminiferous Tubules Stage (VIII) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stage VIII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227565
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227565/suppl/GSM227565.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227566 | GPL1355 |
|
Seminiferous Tubules Stage (VIII) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stage VIII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227566
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227566/suppl/GSM227566.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227567 | GPL1355 |
|
Seminiferous Tubules Stage (VIII) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stage VIII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227567
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227567/suppl/GSM227567.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227568 | GPL1355 |
|
Seminiferous Tubules Stage (VIII) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stage VIII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227568
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227568/suppl/GSM227568.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227569 | GPL1355 |
|
Seminiferous Tubules Stage (VIII) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stage VIII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227569
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227569/suppl/GSM227569.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227570 | GPL1355 |
|
Seminiferous Tubules Stage (IX-XI) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stages IX-XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227570
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227570/suppl/GSM227570.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227571 | GPL1355 |
|
Seminiferous Tubules Stage (IX-XI) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stages IX-XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227571
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227571/suppl/GSM227571.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227572 | GPL1355 |
|
Seminiferous Tubules Stage (IX-XI) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stages IX-XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227572
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227572/suppl/GSM227572.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227573 | GPL1355 |
|
Seminiferous Tubules Stage (IX-XI) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stages IX-XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227573
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227573/suppl/GSM227573.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227574 | GPL1355 |
|
Seminiferous Tubules Stage (IX-XI) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stages IX-XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227574
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227574/suppl/GSM227574.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227575 | GPL1355 |
|
Seminiferous Tubules Stage (XII) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stage XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227575
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227575/suppl/GSM227575.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227576 | GPL1355 |
|
Seminiferous Tubules Stage (XII) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stage XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227576
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227576/suppl/GSM227576.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227577 | GPL1355 |
|
Seminiferous Tubules Stage (XII) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stage XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227577
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227577/suppl/GSM227577.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227578 | GPL1355 |
|
Seminiferous Tubules Stage (XII) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stage XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227578
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227578/suppl/GSM227578.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227579 | GPL1355 |
|
Seminiferous Tubules Stage (XII) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stage XII
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227579
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227579/suppl/GSM227579.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227580 | GPL1355 |
|
Seminiferous Tubules Stage (XIII-XIV) Replica_3
|
Rattus norvegicus Seminiferous Tubules at Stages XIII-XIV
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227580
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227580/suppl/GSM227580.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227581 | GPL1355 |
|
Seminiferous Tubules Stage (XIII-XIV) Replica_1
|
Rattus norvegicus Seminiferous Tubules at Stages XIII-XIV
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227581
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227581/suppl/GSM227581.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227582 | GPL1355 |
|
Seminiferous Tubules Stage (XIII-XIV) Replica_5
|
Rattus norvegicus Seminiferous Tubules at Stages XIII-XIV
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227582
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227582/suppl/GSM227582.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227583 | GPL1355 |
|
Seminiferous Tubules Stage (XIII-XIV) Replica_2
|
Rattus norvegicus Seminiferous Tubules at Stages XIII-XIV
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227583
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227583/suppl/GSM227583.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227584 | GPL1355 |
|
Seminiferous Tubules Stage (XIII-XIV) Replica_4
|
Rattus norvegicus Seminiferous Tubules at Stages XIII-XIV
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227584
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227584/suppl/GSM227584.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227585 | GPL1355 |
|
Sertoli Cells Replica_2
|
Rattus norvegicus Sertoli cells
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227585
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227585/suppl/GSM227585.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227586 | GPL1355 |
|
Sertoli Cells Replica_1
|
Rattus norvegicus Sertoli cells
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227586
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227586/suppl/GSM227586.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227587 | GPL1355 |
|
Sertoli Cells Replica_3
|
Rattus norvegicus Sertoli cells
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227587
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227587/suppl/GSM227587.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227588 | GPL1355 |
|
Sertoli Cells Replica_4
|
Rattus norvegicus Sertoli cells
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227588
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227588/suppl/GSM227588.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227589 | GPL1355 |
|
Round Spermatid Replica_4
|
Rattus norvegicus Round Spermatid
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227589
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227589/suppl/GSM227589.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227590 | GPL1355 |
|
Round Spermatid Replica_3
|
Rattus norvegicus Round Spermatid
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227590
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227590/suppl/GSM227590.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227591 | GPL1355 |
|
Round Spermatid Replica_2
|
Rattus norvegicus Round Spermatid
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227591
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227591/suppl/GSM227591.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227592 | GPL1355 |
|
Round Spermatid Replica_1
|
Rattus norvegicus Round Spermatid
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227592
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227592/suppl/GSM227592.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227593 | GPL1355 |
|
Pachytene Spermatocytes Replica_1
|
Rattus norvegicus Pachytene Spermatocytes
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227593
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227593/suppl/GSM227593.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227594 | GPL1355 |
|
Pachytene Spermatocytes Replica_2
|
Rattus norvegicus Pachytene Spermatocytes
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227594
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227594/suppl/GSM227594.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227595 | GPL1355 |
|
Pachytene Spermatocytes Replica_4
|
Rattus norvegicus Pachytene Spermatocytes
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227595
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227595/suppl/GSM227595.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227596 | GPL1355 |
|
Pachytene Spermatocytes Replica_3
|
Rattus norvegicus Pachytene Spermatocytes
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227596
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227596/suppl/GSM227596.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227597 | GPL1355 |
|
Spermatogonia Plus Early Spermatocytes Replica_3
|
Rattus norvegicus Spermatogonia and early spermatocytes
|
Strain:Sprague Dawley
Age:18-20 days
|
none
|
| Sample_geo_accession | GSM227597
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227597/suppl/GSM227597.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227598 | GPL1355 |
|
Spermatogonia Plus Early Spermatocytes Replica_2
|
Rattus norvegicus Spermatogonia and early spermatocytes
|
Strain:Sprague Dawley
Age:18-20 days
|
none
|
| Sample_geo_accession | GSM227598
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227598/suppl/GSM227598.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227599 | GPL1355 |
|
Spermatogonia Plus Early Spermatocytes Replica_1
|
Rattus norvegicus Spermatogonia and early spermatocytes
|
Strain:Sprague Dawley
Age:18-20 days
|
none
|
| Sample_geo_accession | GSM227599
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227599/suppl/GSM227599.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227600 | GPL1355 |
|
Whole Testis replica_1
|
Rattus norvegicus Whole Testis
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227600
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227600/suppl/GSM227600.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227601 | GPL1355 |
|
Whole Testis replica_2
|
Rattus norvegicus Whole Testis
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227601
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227601/suppl/GSM227601.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227602 | GPL1355 |
|
Whole Testis replica_3
|
Rattus norvegicus Whole Testis
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227602
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227602/suppl/GSM227602.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227603 | GPL1355 |
|
Whole Testis replica_4
|
Rattus norvegicus Whole Testis
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227603
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227603/suppl/GSM227603.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
GSM227604 | GPL1355 |
|
Whole Testis replica_5
|
Rattus norvegicus Whole Testis
|
Strain:Sprague Dawley
Age:55-60 days
|
none
|
| Sample_geo_accession | GSM227604
| | Sample_status | Public on May 19 2008
| | Sample_submission_date | Sep 06 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Seminiferous tubules at the following stages or groups of stages were isolated by transillumination-assisted microdissection: I, II-III, IV-V, VI, VIIa,b, VIIc,d, VIII, IX-XI, XII, XIII-XIV. Twenty-five segments of tubules, 2 m in length, were collected at each stage or group of stages from each rat. Tubules from two separate animals were pooled to form one sample from each stage or groups of stages. A total of 5 independent samples per stage or groups of stages were analyzed. Mature Sertoli cells were isolated to about 85% purity (n=4). Three groups of germ cells were isolated by centrifugal elutriation from enzyme-dispersed testes: round spermatids (n=4), pachytene spermatocytes (n=4) and spermatogonia plus early spermatocytes (n=3) . Purity of these cells has been shown to vary between 85% to 95%
| | Sample_growth_protocol_ch1 | Sprague Dawley rats 55-60 days of age were used for the collection of seminiferous tubules at defined stages of the cycle and for the isolation of Sertoli cells, pachytene spermatocytes and round spermatids. Rats 18-20 days of age were used for the isolation of a pool of spermatogonia and early spermatocytes.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA follwed by further purification with RNAeasy was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array RG230 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Scott,,Jelinsky
| | Sample_contact_email | Scott.Jelinsky@pfizer.com
| | Sample_contact_phone | 617-665-5366
| | Sample_contact_laboratory | Bioresearch
| | Sample_contact_department | Tissue Repair
| | Sample_contact_institute | Pfizer
| | Sample_contact_address | 200 CambridgePark Drive
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02140
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM227nnn/GSM227604/suppl/GSM227604.cel.gz
| | Sample_series_id | GSE8978
| | Sample_data_row_count | 31099
| | |
|
| |
| |
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(2 groups will be compared at a time) |
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