Search results for the GEO ID: GSE8924 |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM225967 | GPL339 |
|
Testis_rFSH injected_12h_rep1
|
testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h. Mice were killed one hour after the last injection by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 1.
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM225967
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM225nnn/GSM225967/suppl/GSM225967.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226036 | GPL339 |
|
Testis_rFSH injected_12h_rep2
|
testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 2.
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226036
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226036/suppl/GSM226036.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226043 | GPL339 |
|
Testis_rFSH injected_12h_rep3
|
testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 3.
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226043
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226043/suppl/GSM226043.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226054 | GPL339 |
|
Testis_rFSH injected_12h_rep4
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 4.
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226054
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 12h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226054/suppl/GSM226054.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226152 | GPL339 |
|
Testis_rFSH injected_24h_rep1
|
Testis
|
0 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 24h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 1.
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226152
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 24h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226152/suppl/GSM226152.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226153 | GPL339 |
|
Testis_rFSH injected_24h_rep2
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 24h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 1.
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226153
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 24h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226153/suppl/GSM226153.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226161 | GPL339 |
|
Testis_rFSH injected_24h_rep3
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 24h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 3
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226161
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 24h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226161/suppl/GSM226161.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226169 | GPL339 |
|
Testis_rFSH injected_72h_rep1
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 1
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226169
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226169/suppl/GSM226169.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226170 | GPL339 |
|
Testis_rFSH injected_72h_rep2
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 2
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226170
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226170/suppl/GSM226170.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226172 | GPL339 |
|
Testis_rFSH injected_72h_rep3
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 3
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226172
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226172/suppl/GSM226172.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226175 | GPL339 |
|
Testis_rFSH injected_72h_rep4
|
Testis
|
10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h. Mice were killed one hour after the last injection by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 4
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226175
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | 10 week old hpg males were injected sc with 8 I.U. of rFSH (Gonal F, Serono Pharmaceuticals) in 0.2ml of PBS (Sigma,UK) every 12 h for 72h.
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226175/suppl/GSM226175.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226179 | GPL339 |
|
Testis_control untreated_rep1
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 1
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226179
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 30 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226179/suppl/GSM226179.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226284 | GPL339 |
|
Testis_control untreated_rep2
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 2
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226284
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 31 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226284/suppl/GSM226284.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226285 | GPL339 |
|
Testis_control untreated_rep3
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 3
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226285
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 31 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226285/suppl/GSM226285.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226286 | GPL339 |
|
Testis_control untreated_rep4
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 4
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226286
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 31 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226286/suppl/GSM226286.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226288 | GPL339 |
|
Testis_control untreated_rep5
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 5
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226288
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 31 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226288/suppl/GSM226288.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226290 | GPL339 |
|
Testis_control untreated_rep6
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 6
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226290
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 31 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226290/suppl/GSM226290.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
GSM226291 | GPL339 |
|
Testis_control untreated_rep7
|
Testis
|
10 week old hpg males were killed by cervical dislocation; testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until use. RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions. Biological Replicate 7
|
Here we have addressed important question of changes in the global gene expression profile of testicular tissue following hormone stimulation (rFSH) for 12, 24 and 72h following injections compared to control untreated hpg males of the same age.
|
Sample_geo_accession | GSM226291
| Sample_status | Public on Aug 18 2009
| Sample_submission_date | Aug 31 2007
| Sample_last_update_date | Aug 14 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_biomaterial_provider_ch1 | hpg mice from the original colony discovered at the MRC Laboratories, Harwell, Oxford (Cattanach et al., 1977) were bred in house within our department
| Sample_treatment_protocol_ch1 | Control untreated
| Sample_growth_protocol_ch1 | male mice were acclimatized and caged in groups of six or less at our in house facility. Animals were sacrificed by cervical dislocation, testes dissected out, weighed and snap frozen in liquid nitrogen. Tissue was stored at -70oC until RNA extraction.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen RNeasy Lipid Tissue Mini kit (Qiagen, Valencia, CA) according to the the manufacturer’s instructions manufacturer’s instructions.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | 8 µg of RNA was converted to double-stranded cDNA using one-cycle cDNA synthesis kit (Affymetrix), followed by in vitro transcription (IVT) to generate biotin-labelled cRNA probes.
| Sample_hyb_protocol | Fragmented labelled cRNA (15µg) was used in 300µl hybridization cocktail containing spiked controls (Affymetrix #900299). An aliquot of 200µl of this hybridization cocktail was used on each chip which was incubated at 45°C for 16 h in the hybridization oven, rotating at 60 rpm. Following hybridization, the arrays were processed using a Genechip Fluidics Station 400 according to recommended protocols (EukGE-WS2v4, Affymetrix) of double-staining and post-hybridisations washes.
| Sample_scan_protocol | Fluorescent images were captured using gene Array Scanner 2500 and GCOS1.2 software (Affymetrix)
| Sample_data_processing | We have used the GeneChip Robust Multi-array Average expression measurements (GC-RMA) as implemented in BioConductor R statistics (www.bioconductor.org). Cell Intensity files (CEL) were used to obtain expression values for all the 22,690 probe sets (transcripts) on each of these chips
| Sample_platform_id | GPL339
| Sample_contact_name | Dilair,,Baban
| Sample_contact_email | dilair.baban@well.ox.ac.uk
| Sample_contact_phone | +44(0)1865287521
| Sample_contact_fax | +44(0)1865287501
| Sample_contact_laboratory | Genomics
| Sample_contact_department | Wellcome Trust Centre Human Genetics
| Sample_contact_institute | University of Oxford
| Sample_contact_address | Roosevelt Drive
| Sample_contact_city | Oxford
| Sample_contact_zip/postal_code | OX3 7BN
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM226nnn/GSM226291/suppl/GSM226291.CEL.gz
| Sample_series_id | GSE8924
| Sample_data_row_count | 22690
| |
|
|
|
Make groups for comparisons |
(2 groups will be compared at a time) |
|
Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|