Search results for the GEO ID: GSE21525  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM537711 | GPL1261 |
|
day-7 testis, wild type-3
|
day-7 testis, wild type
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: wild-type
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 wild-type testis.
|
| Sample_geo_accession | GSM537711
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537711/suppl/GSM537711.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537711/suppl/GSM537711.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537712 | GPL1261 |
|
day-7 testis, wild type-4
|
day-7 testis, wild type
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: wild-type
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 wild-type testis.
|
| Sample_geo_accession | GSM537712
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537712/suppl/GSM537712.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537712/suppl/GSM537712.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537713 | GPL1261 |
|
day-7 testis, wild type-5
|
day-7 testis, wild type
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: wild-type
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 wild-type testis.
|
| Sample_geo_accession | GSM537713
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537713/suppl/GSM537713.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537713/suppl/GSM537713.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537714 | GPL1261 |
|
day-7 testis, wild type-6
|
day-7 testis, wild type
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: wild-type
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 wild-type testis.
|
| Sample_geo_accession | GSM537714
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537714/suppl/GSM537714.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537714/suppl/GSM537714.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537715 | GPL1261 |
|
day-7 testis, Sohlh1 KO-2
|
day-7 testis, Sohlh1 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh1-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh1-KO testis.
|
| Sample_geo_accession | GSM537715
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537715/suppl/GSM537715.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537715/suppl/GSM537715.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537716 | GPL1261 |
|
day-7 testis, Sohlh1 KO-3
|
day-7 testis, Sohlh1 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh1-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh1-KO testis.
|
| Sample_geo_accession | GSM537716
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537716/suppl/GSM537716.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537716/suppl/GSM537716.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537717 | GPL1261 |
|
day-7 testis, Sohlh1 KO-4
|
day-7 testis, Sohlh1 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh1-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh1-KO testis.
|
| Sample_geo_accession | GSM537717
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537717/suppl/GSM537717.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537717/suppl/GSM537717.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537718 | GPL1261 |
|
day-7 testis, Sohlh1 KO-5
|
day-7 testis, Sohlh1 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh1-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh1-KO testis.
|
| Sample_geo_accession | GSM537718
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537718/suppl/GSM537718.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537718/suppl/GSM537718.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537719 | GPL1261 |
|
day-7 testis, Sohlh2 KO-1
|
day-7 testis, Sohlh2 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh2-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh2-KO testis.
|
| Sample_geo_accession | GSM537719
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537719/suppl/GSM537719.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537719/suppl/GSM537719.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537720 | GPL1261 |
|
day-7 testis, Sohlh2 KO-3-1
|
day-7 testis, Sohlh2 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh2-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh2-KO testis.
|
| Sample_geo_accession | GSM537720
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537720/suppl/GSM537720.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537720/suppl/GSM537720.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537721 | GPL1261 |
|
day-7 testis, Sohlh2 KO-4
|
day-7 testis, Sohlh2 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh2-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh2-KO testis.
|
| Sample_geo_accession | GSM537721
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537721/suppl/GSM537721.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537721/suppl/GSM537721.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
|
GSM537722 | GPL1261 |
|
day-7 testis, Sohlh2 KO-5
|
day-7 testis, Sohlh2 KO
|
strain: C57BL/6, 129S5, SvEvBrd hybrid background
genotype: Sohlh2-/-
tissue: testis
age: postnatal day 7
|
Gene expression data of day-7 Sohlh2-KO testis.
|
| Sample_geo_accession | GSM537722
| | Sample_status | Public on Apr 27 2010
| | Sample_submission_date | Apr 26 2010
| | Sample_last_update_date | Apr 26 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Testes were dissected from postnatal day 7 animals and placed in RNAlater (Ambion) for 24 hours at 4 degrees Celsius. After 24 hours, RNAlater solution was removed and testes were frozen and placed in a -80 degree freezer.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 3 testes (1 testis from each animal) were pooled per Affymetrix array. Total RNA was isolated using Qiagen Rneasy mini kits. On-column Dnase digestion step was performed. RNA was eluted in RNase-free water and frozen at -80 degrees Celsius until sample quality could be accessed with the Agilent Bioanalyzer system.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample quality checks were conducted using the Nanodrop ND-1000 spectrophotometer and Agilent Bioanalyer 2100. The Affymetrix GenechipT microarray system was then used. Samples were labeled using the standard Affymetrix T7 oligo(dT) primer protocol. Five µg of total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the vitro transcription reaction, producing biotin-labeled cRNA. The labeled cRNA was quantified using the NanoDrop® ND-1000 spectrophotometer. 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration.
| | Sample_hyb_protocol | A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm and then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip® Scanner 3000. The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4.
| | Sample_data_processing | Data were scaled using Affymetrix MAS5.0/GCOS software.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Aleksandar,,Rajkovic
| | Sample_contact_email | rajkovic@upmc.edu
| | Sample_contact_phone | 412-641-7457
| | Sample_contact_fax | 412-641-8519
| | Sample_contact_department | Dept. of Obstetrics, Gynecology & Reproductive Sciences
| | Sample_contact_institute | Magee-Womens Research Institute
| | Sample_contact_address | 204 Craft Ave. Suite A230
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537722/suppl/GSM537722.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537722/suppl/GSM537722.cel.gz
| | Sample_series_id | GSE21525
| | Sample_data_row_count | 45101
| | |
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