Search results for the GEO ID: GSE15431  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM387005 | GPL570 |
|
Ovary 9.1 Weeks Gestation
|
Human Ovary 9.1 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 9.1 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387005
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387005/suppl/GSM387005.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387006 | GPL570 |
|
Ovary 9.6 Weeks Gestation rep1
|
Human Ovary 9.6 Weeks Gestation rep1
|
tissue: Human fetal ovary
fetus age: 9.6 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387006
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387006/suppl/GSM387006.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387007 | GPL570 |
|
Ovary 9.6 Weeks Gestation rep2
|
Human Ovary 9.6 Weeks Gestation rep2
|
tissue: Human fetal ovary
fetus age: 9.6 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387007
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387007/suppl/GSM387007.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387008 | GPL570 |
|
Ovary 9.6 Weeks Gestation rep3
|
Human Ovary 9.6 Weeks Gestation rep3
|
tissue: Human fetal ovary
fetus age: 9.6 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387008
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387008/suppl/GSM387008.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387009 | GPL570 |
|
Ovary 11 Weeks Gestation
|
Human Ovary 11 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 11 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387009
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387009/suppl/GSM387009.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387010 | GPL570 |
|
Ovary 12 Weeks Gestation
|
Human Ovary 12 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 12 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387010
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387010/suppl/GSM387010.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387011 | GPL570 |
|
Ovary 12.9 Weeks Gestation
|
Human Ovary 12.9 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 12.9 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387011
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387011/suppl/GSM387011.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387012 | GPL570 |
|
Ovary 13.6 Weeks Gestation rep1
|
Human Ovary 13.6 Weeks Gestation rep1
|
tissue: Human fetal ovary
fetus age: 13.6 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387012
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387012/suppl/GSM387012.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387013 | GPL570 |
|
Ovary 13.6 Weeks Gestation rep2
|
Human Ovary 13.6 Weeks Gestation rep2
|
tissue: Human fetal ovary
fetus age: 13.6 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387013
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387013/suppl/GSM387013.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387014 | GPL570 |
|
Ovary 13.9 Weeks Gestation
|
Human Ovary 13.9 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 13.9 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387014
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387014/suppl/GSM387014.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387015 | GPL570 |
|
Ovary 14.4 Weeks Gestation
|
Human Ovary 14.4 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 14.4 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387015
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387015/suppl/GSM387015.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387016 | GPL570 |
|
Ovary 16.1 Weeks Gestation
|
Human Ovary 16.1 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 16.1 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387016
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387016/suppl/GSM387016.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387017 | GPL570 |
|
Ovary 16.4 Weeks Gestation
|
Human Ovary 16.4 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 16.4 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387017
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387017/suppl/GSM387017.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387018 | GPL570 |
|
Ovary 16.9 Weeks Gestation rep1
|
Human Ovary 16.9 Weeks Gestation rep1
|
tissue: Human fetal ovary
fetus age: 16.9 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387018
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387018/suppl/GSM387018.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387019 | GPL570 |
|
Ovary 16.9 Weeks Gestation rep2
|
Human Ovary 16.9 Weeks Gestation rep2
|
tissue: Human fetal ovary
fetus age: 16.9 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387019
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387019/suppl/GSM387019.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387020 | GPL570 |
|
Ovary 17.1 Weeks Gestation
|
Human Ovary 17.1 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 17.1 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387020
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387020/suppl/GSM387020.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387021 | GPL570 |
|
Ovary 18.1 Weeks Gestation
|
Human Ovary 18.1 Weeks Gestation
|
tissue: Human fetal ovary
fetus age: 18.1 weeks
|
gene expression data from normal human fetal ovaries between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387021
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387021/suppl/GSM387021.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387022 | GPL570 |
|
Testis 9 Weeks Gestation
|
Human Testis 9 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 9 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387022
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387022/suppl/GSM387022.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387023 | GPL570 |
|
Testis 9.1 Weeks Gestation
|
Human Testis 9.1 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 9.1 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387023
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387023/suppl/GSM387023.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387024 | GPL570 |
|
Testis 9.9 Weeks Gestation
|
Human Testis 9.9 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 9.9 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387024
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387024/suppl/GSM387024.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387025 | GPL570 |
|
Testis 11 Weeks Gestation rep1
|
Human Testis 11 Weeks Gestation rep1
|
tissue: Human fetal testis
fetus age: 11 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387025
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387025/suppl/GSM387025.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387026 | GPL570 |
|
Testis 11 Weeks Gestation rep2
|
Human Testis 11 Weeks Gestation rep2
|
tissue: Human fetal testis
fetus age: 11 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387026
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387026/suppl/GSM387026.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387027 | GPL570 |
|
Testis 11.7 Weeks Gestation
|
Human Testis 11.7 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 11.7 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387027
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387027/suppl/GSM387027.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387028 | GPL570 |
|
Testis 12 Weeks Gestation
|
Human Testis 12 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 12 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387028
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387028/suppl/GSM387028.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387029 | GPL570 |
|
Testis 12.6 Weeks Gestation
|
Human Testis 12.6 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 12.6 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387029
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387029/suppl/GSM387029.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387030 | GPL570 |
|
Testis 13.6 Weeks Gestation
|
Human Testis 13.6 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 13.6 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387030
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387030/suppl/GSM387030.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387031 | GPL570 |
|
Testis 13.9 Weeks Gestation rep1
|
Human Testis 13.9 Weeks Gestation rep1
|
tissue: Human fetal testis
fetus age: 13.9 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387031
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387031/suppl/GSM387031.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387032 | GPL570 |
|
Testis 13.9 Weeks Gestation rep2
|
Human Testis 13.9 Weeks Gestation rep2
|
tissue: Human fetal testis
fetus age: 13.9 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387032
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387032/suppl/GSM387032.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387033 | GPL570 |
|
Testis 16.1 Weeks Gestation rep1
|
Human Testis 16.1 Weeks Gestation rep1
|
tissue: Human fetal testis
fetus age: 16.1 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387033
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387033/suppl/GSM387033.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387034 | GPL570 |
|
Testis 16.1 Weeks Gestation rep2
|
Human Testis 16.1 Weeks Gestation rep2
|
tissue: Human fetal testis
fetus age: 16.1 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387034
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387034/suppl/GSM387034.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387035 | GPL570 |
|
Testis 17.2 Weeks Gestation
|
Human Testis 17.2 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 17.2 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387035
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387035/suppl/GSM387035.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387036 | GPL570 |
|
Testis 18.6 Weeks Gestation
|
Human Testis 18.6 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 18.6 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387036
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387036/suppl/GSM387036.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387037 | GPL570 |
|
Testis 18.9 Weeks Gestation
|
Human Testis 18.9 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 18.9 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387037
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387037/suppl/GSM387037.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
GSM387038 | GPL570 |
|
Testis 19.9 Weeks Gestation
|
Human Testis 19.9 Weeks Gestation
|
tissue: Human fetal testis
fetus age: 19.9 weeks
|
gene expression data from normal human fetal testes between 9 weeks and 20 weeks of gestation
|
| Sample_geo_accession | GSM387038
| | Sample_status | Public on May 01 2009
| | Sample_submission_date | Mar 27 2009
| | Sample_last_update_date | Mar 27 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Protect Mini/midi Kit®.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Ovation Biotin RNA Amplification and Labeling System by NuGEN (San Carlos, CA)
| | Sample_hyb_protocol | The labeled cDNA was fragmented, hybridized to Human Genome U133A Plus arrays (Affymetrix, Santa Clara, CA) and stained in accordance with the manufacturer's standard protocol.
| | Sample_scan_protocol | The arrays were washed utilizing the Affymetrix GeneChip Fluidics Station 400 and scanned using a GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
| | Sample_data_processing | Analysis of data was conducted within the R statistical computing environment (www.R-project.org). Visual inspection of 49 scanned images and output from the “affyQCreport” package of Bioconductor (www.bioconductor.org) revealed 34 of 49 arrays were within acceptable limits. The 15 arrays that were unacceptable had significant degradation as determined by poor 3’/5’ ratios of Affy control probe sets present on each array. For the remaining 34 arrays, probe sets were filtered on the following two criteria: probe sets not classified as present in any array were eliminated and two separate normalizations of the data (MAS5 and RMA) were then performed. The background intensity values for each normalization routine was determined using probe sets labeled absent in all microarrays and only those probe sets above the 99th percentile of the background were retained for further analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lizhong,,Yang
| | Sample_contact_email | lzyang@wsu.edu
| | Sample_contact_phone | 1-509-335-2240
| | Sample_contact_fax | 1-509-335-9688
| | Sample_contact_laboratory | Griswold Lab/Center for Reproductive Biology
| | Sample_contact_department | School of Molecular Biosciences
| | Sample_contact_institute | Washington State University
| | Sample_contact_address | 531 Fulmer Hall/POB 644660
| | Sample_contact_city | Pullman
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 99164-4660
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.wsu.edu/~griswold
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM387nnn/GSM387038/suppl/GSM387038.CEL.gz
| | Sample_series_id | GSE15431
| | Sample_data_row_count | 54675
| | |
|
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