Search results for the GEO ID: GSE16191  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM406416 | GPL570 |
|
unilateral_cryptorchid 1
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406416
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406416/suppl/GSM406416.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406417 | GPL570 |
|
unilateral_cryptorchid 2
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406417
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406417/suppl/GSM406417.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406418 | GPL570 |
|
unilateral_cryptorchid 3
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406418
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406418/suppl/GSM406418.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406419 | GPL570 |
|
unilateral_cryptorchid 4
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406419
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406419/suppl/GSM406419.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406420 | GPL570 |
|
unilateral_cryptorchid 5
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406420
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406420/suppl/GSM406420.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406421 | GPL570 |
|
unilateral_cryptorchid 6
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406421
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406421/suppl/GSM406421.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406422 | GPL570 |
|
unilateral_cryptorchid 7
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406422
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406422/suppl/GSM406422.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406423 | GPL570 |
|
unilateral_cryptorchid 8
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406423
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406423/suppl/GSM406423.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406424 | GPL570 |
|
unilateral_cryptorchid 9
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406424
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406424/suppl/GSM406424.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406425 | GPL570 |
|
unilateral_cryptorchid 10
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406425
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406425/suppl/GSM406425.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406426 | GPL570 |
|
bilateral_cryptorchid 1
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406426
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406426/suppl/GSM406426.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406427 | GPL570 |
|
bilateral_cryptorchid 2
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406427
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406427/suppl/GSM406427.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406428 | GPL570 |
|
unilateral_cryptorchid 11
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406428
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406428/suppl/GSM406428.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406429 | GPL570 |
|
unilateral_cryptorchid 12
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406429
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406429/suppl/GSM406429.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406430 | GPL570 |
|
unilateral_cryptorchid 13
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406430
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406430/suppl/GSM406430.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406431 | GPL570 |
|
unilateral_cryptorchid 14
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406431
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406431/suppl/GSM406431.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406432 | GPL570 |
|
control_(by_contralateral_testicular_aplasia) 1
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406432
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406432/suppl/GSM406432.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406433 | GPL570 |
|
control_(by_contralateral_testicular_aplasia) 2
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406433
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406433/suppl/GSM406433.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406434 | GPL570 |
|
control_(by_contralateral_testicular_aplasia) 3
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406434
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406434/suppl/GSM406434.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
GSM406435 | GPL570 |
|
control_(by_contralateral_testicular_aplasia) 4
|
testes
|
tissue: total testicular
|
Total testicular tissue
|
| Sample_geo_accession | GSM406435
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA was taken from total testicular tissue
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Affymetrix recommended
| | Sample_hyb_protocol | Affymetrix recommended
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | RMA using the justRMA() function in the Affy package of Bioconductor
| | Sample_platform_id | GPL570
| | Sample_contact_name | Edward,James,Oakeley
| | Sample_contact_email | edward.oakeley@fmi.ch
| | Sample_contact_institute | Friedrich Miescher Institute for Biomedical Research
| | Sample_contact_address | Maulbeerstrasse 66
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4058
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406435/suppl/GSM406435.CEL.gz
| | Sample_series_id | GSE16191
| | Sample_data_row_count | 54675
| | |
|
| |
| |
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