Search results for the GEO ID: GSE38021  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM932402 | GPL570 |
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control-siRNA-ST1
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ST1_control-siRNA
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cell line: ST1
cell line source: adult T cell leukemia/lymphoma patient (ATLL)
genotype/variation: CD4+, CCR4+, Tax-
transfected with: control siRNA
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| Sample_geo_accession | GSM932402
| | Sample_status | Public on May 16 2013
| | Sample_submission_date | May 17 2012
| | Sample_last_update_date | May 16 2013
| | 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 | ISOGEN® (NIPPON GENE, Tokyo, Japan) extraction of total RNA was performed according to the manufacturer's instructions. The total RNA was analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies, Waldbronn, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized with the GeneChip® 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (Affymetrix). The labeled cRNAs were then purified and used for probes.
| | Sample_hyb_protocol | Hybridization was performed on the Affymetrix GeneChip HG-U133 Plus2.0 array for 16 hours at 45C.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip®Scanner3000 (Affymetrix) ) and converted to numerical data with GeneChip Operating Software, Ver.1 (Affymetrix).
| | Sample_data_processing | The analysis was performed using the BRB Array Tools software version 3.3.0 (http://linus.nci.nih.gov/BRB-ArrayTools.html) developed by Richard Simon and Amy Peng. A log base 2 transformation was applied to the microarray raw data, and global normalization was used to median over entire array. Genes were excluded if percent of data missing or filtered out exceeds 20%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Tomonori,,Higuchi
| | Sample_contact_email | tomb-key@med.kindai.ac.jp
| | Sample_contact_department | Department of Microbiology
| | Sample_contact_institute | Kinki University Faculty of Medicine
| | Sample_contact_address | 377-2 Ohno-Higashi
| | Sample_contact_city | Osaka-Sayama
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 589-8511
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM932nnn/GSM932402/suppl/GSM932402_B090427-C2.CEL.gz
| | Sample_series_id | GSE38021
| | Sample_data_row_count | 54675
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GSM932403 | GPL570 |
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SOX4-siRNA-ST1
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ST1_SOX4-siRNA
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cell line: ST1
cell line source: adult T cell leukemia/lymphoma patient (ATLL)
genotype/variation: CD4+, CCR4+, Tax-
transfected with: SOX4-siRNA
|
|
| Sample_geo_accession | GSM932403
| | Sample_status | Public on May 16 2013
| | Sample_submission_date | May 17 2012
| | Sample_last_update_date | May 16 2013
| | 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 | ISOGEN® (NIPPON GENE, Tokyo, Japan) extraction of total RNA was performed according to the manufacturer's instructions. The total RNA was analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies, Waldbronn, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized with the GeneChip® 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (Affymetrix). The labeled cRNAs were then purified and used for probes.
| | Sample_hyb_protocol | Hybridization was performed on the Affymetrix GeneChip HG-U133 Plus2.0 array for 16 hours at 45C.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip®Scanner3000 (Affymetrix) ) and converted to numerical data with GeneChip Operating Software, Ver.1 (Affymetrix).
| | Sample_data_processing | The analysis was performed using the BRB Array Tools software version 3.3.0 (http://linus.nci.nih.gov/BRB-ArrayTools.html) developed by Richard Simon and Amy Peng. A log base 2 transformation was applied to the microarray raw data, and global normalization was used to median over entire array. Genes were excluded if percent of data missing or filtered out exceeds 20%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Tomonori,,Higuchi
| | Sample_contact_email | tomb-key@med.kindai.ac.jp
| | Sample_contact_department | Department of Microbiology
| | Sample_contact_institute | Kinki University Faculty of Medicine
| | Sample_contact_address | 377-2 Ohno-Higashi
| | Sample_contact_city | Osaka-Sayama
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 589-8511
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM932nnn/GSM932403/suppl/GSM932403_B090427-S1.CEL.gz
| | Sample_series_id | GSE38021
| | Sample_data_row_count | 54675
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