Search results for the GEO ID: GSE16130  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM403595 | GPL570 |
|
DN T cells
|
TCR-alpha/beta CD4- CD8- human T cells
|
cell type: TCR-alpha-beta+ CD25- T cells
origin: freshly isolated from peripheral blood
|
none
|
| Sample_geo_accession | GSM403595
| | Sample_status | Public on May 16 2009
| | Sample_submission_date | May 15 2009
| | Sample_last_update_date | May 15 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 isolated from sorted T cells using QIAGEN Rneasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA synthesis and hybridization on oligonucleotide microarrays (U133 Plus 2.0 Array GeneChip, Affymetrix, Inc., Santa Clara, CA) containing approximately 54,700 transcripts were carried out using standard protocols.
| | Sample_hyb_protocol | Microarray experiments were performed at the Beth Israel Deaconess Medical Center (BIDMC) Genomics Core as previously described.
| | Sample_scan_protocol | Microarray experiments were performed at the Beth Israel Deaconess Medical Center (BIDMC) Genomics Core as previously described.
| | Sample_data_processing | Raw data were normalized using RMAExpress version 1.0 and analyzed using Nexus Expression version 1.0. Low intensity probes were filtered when their expression value was <8.0 in 70% of the samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jose,C,Crispin
| | Sample_contact_email | jcrispin@bidmc.harvard.edu
| | Sample_contact_phone | 617-735-4166
| | Sample_contact_laboratory | Tsokos
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Beth Israel Deaconess Medical Center
| | Sample_contact_address | 330 Brookline Ave, CLS-928
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM403nnn/GSM403595/suppl/GSM403595.CEL.gz
| | Sample_series_id | GSE16130
| | Sample_data_row_count | 54675
| | |
|
GSM403596 | GPL570 |
|
CD4 T cells
|
TCR-alpha/beta CD4+ CD8- human T cells
|
cell type: TCR-alpha-beta+ CD25- T cells
origin: freshly isolated from peripheral blood
|
none
|
| Sample_geo_accession | GSM403596
| | Sample_status | Public on May 16 2009
| | Sample_submission_date | May 15 2009
| | Sample_last_update_date | May 15 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 isolated from sorted T cells using QIAGEN Rneasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA synthesis and hybridization on oligonucleotide microarrays (U133 Plus 2.0 Array GeneChip, Affymetrix, Inc., Santa Clara, CA) containing approximately 54,700 transcripts were carried out using standard protocols.
| | Sample_hyb_protocol | Microarray experiments were performed at the Beth Israel Deaconess Medical Center (BIDMC) Genomics Core as previously described.
| | Sample_scan_protocol | Microarray experiments were performed at the Beth Israel Deaconess Medical Center (BIDMC) Genomics Core as previously described.
| | Sample_data_processing | Raw data were normalized using RMAExpress version 1.0 and analyzed using Nexus Expression version 1.0. Low intensity probes were filtered when their expression value was <8.0 in 70% of the samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jose,C,Crispin
| | Sample_contact_email | jcrispin@bidmc.harvard.edu
| | Sample_contact_phone | 617-735-4166
| | Sample_contact_laboratory | Tsokos
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Beth Israel Deaconess Medical Center
| | Sample_contact_address | 330 Brookline Ave, CLS-928
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM403nnn/GSM403596/suppl/GSM403596.CEL.gz
| | Sample_series_id | GSE16130
| | Sample_data_row_count | 54675
| | |
|
GSM403597 | GPL570 |
|
CD8 T cells
|
TCR-alpha/beta CD4- CD8+ human T cells
|
cell type: TCR-alpha-beta+ CD25- T cells
origin: freshly isolated from peripheral blood
|
none
|
| Sample_geo_accession | GSM403597
| | Sample_status | Public on May 16 2009
| | Sample_submission_date | May 15 2009
| | Sample_last_update_date | May 15 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 isolated from sorted T cells using QIAGEN Rneasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA synthesis and hybridization on oligonucleotide microarrays (U133 Plus 2.0 Array GeneChip, Affymetrix, Inc., Santa Clara, CA) containing approximately 54,700 transcripts were carried out using standard protocols.
| | Sample_hyb_protocol | Microarray experiments were performed at the Beth Israel Deaconess Medical Center (BIDMC) Genomics Core as previously described.
| | Sample_scan_protocol | Microarray experiments were performed at the Beth Israel Deaconess Medical Center (BIDMC) Genomics Core as previously described.
| | Sample_data_processing | Raw data were normalized using RMAExpress version 1.0 and analyzed using Nexus Expression version 1.0. Low intensity probes were filtered when their expression value was <8.0 in 70% of the samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jose,C,Crispin
| | Sample_contact_email | jcrispin@bidmc.harvard.edu
| | Sample_contact_phone | 617-735-4166
| | Sample_contact_laboratory | Tsokos
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Beth Israel Deaconess Medical Center
| | Sample_contact_address | 330 Brookline Ave, CLS-928
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM403nnn/GSM403597/suppl/GSM403597.CEL.gz
| | Sample_series_id | GSE16130
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
Select expression type |
| Transcripts profile based on; |
A. Differential status (Up/Down regulation) |
|
|
Regulation type |
|
Fold change |
|
p-value |
|
|
|
B. Absolute calls (Transcribed/Not-detected) |
|
|
| Derive calls within/across groups |
Within groups |
|
|
Detection status |
|
Percentage detection |
|
|
Across groups |
|
|
Detection status |
First group: |
- |
Second group:
|
Percentage detection |
First group: |
- |
Second group:
|
|
|
| |
Filter results by number of probes |
|
|
