Search results for the GEO ID: GSE10847 |
(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 |
GSM272100 | GPL570 |
|
H522-BRG1
|
H522 lung cancer cell
|
BRG1 was put back to H522 cells
|
H522 cells overexpressed with BRG1
|
Sample_geo_accession | GSM272100
| Sample_status | Public on Mar 18 2008
| Sample_submission_date | Mar 10 2008
| Sample_last_update_date | Mar 17 2008
| 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 | USB total RNA extraction kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 10 ug of total RNA using the standard labeling techniques for affymetrix chips
| Sample_hyb_protocol | 10 ug cRNA were hybridized to the affymetrix HG-U133 plus chips
| Sample_scan_protocol | genechips were scanned using the Hewiett-Packard genearray scanner
| Sample_data_processing | median-normalized across chips
| Sample_platform_id | GPL570
| Sample_contact_name | Qiaoran,,Xi
| Sample_contact_email | xiq@mskcc.org
| Sample_contact_laboratory | Joan Massague
| Sample_contact_department | Cancer biology and genetics
| Sample_contact_institute | MSKCC
| Sample_contact_address | 1275, York ave.
| Sample_contact_city | New York
| Sample_contact_state | NY
| Sample_contact_zip/postal_code | 10065
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM272nnn/GSM272100/suppl/GSM272100.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM272nnn/GSM272100/suppl/GSM272100.CHP.gz
| Sample_series_id | GSE10847
| Sample_data_row_count | 54675
| |
|
GSM275309 | GPL570 |
|
H522-BRG1-TbRII-Tb
|
H522 lung cancer cell
|
H522 cell's TGFbeta response was restored by putting back BRG1 and TGFbRII
|
BRG1 and TGFbRII were put back to H522 cells. the cells were treated with TGFbeta for 2h.
|
Sample_geo_accession | GSM275309
| Sample_status | Public on Mar 18 2008
| Sample_submission_date | Mar 14 2008
| Sample_last_update_date | Mar 17 2008
| 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 | USB total RNA extraction kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 10 ug of total RNA using the standard labeling techniques for affymetrix chips
| Sample_hyb_protocol | 10 ug cRNA were hybridized to the affymetrix HG-133 plus chips
| Sample_scan_protocol | genechips were scanned using the Hewiett-Packard genearray scanner
| Sample_data_processing | median -normalized across chips
| Sample_platform_id | GPL570
| Sample_contact_name | Qiaoran,,Xi
| Sample_contact_email | xiq@mskcc.org
| Sample_contact_laboratory | Joan Massague
| Sample_contact_department | Cancer biology and genetics
| Sample_contact_institute | MSKCC
| Sample_contact_address | 1275, York ave.
| Sample_contact_city | New York
| Sample_contact_state | NY
| Sample_contact_zip/postal_code | 10065
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275309/suppl/GSM275309.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275309/suppl/GSM275309.CHP.gz
| Sample_series_id | GSE10847
| Sample_data_row_count | 54675
| |
|
GSM275311 | GPL570 |
|
H522-BRG1-TbRII
|
H522 lung cancer cell
|
BRG1 and TbRII were put back to H522 cells.
|
H522 cells with expression of BRG1 and TGFbRII were untreated.
|
Sample_geo_accession | GSM275311
| Sample_status | Public on Mar 18 2008
| Sample_submission_date | Mar 14 2008
| Sample_last_update_date | Mar 17 2008
| 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 | USB total RNA extraction kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 10 ug of total RNA using the standard labeling techniques for affymetrix chips
| Sample_hyb_protocol | 10 ug cRNA were hybridized to the affymetrix HG-U133 plus chips
| Sample_scan_protocol | genechips were scanned using the Hewiett-Packard genearray scanner
| Sample_data_processing | median-normalized across chips
| Sample_platform_id | GPL570
| Sample_contact_name | Qiaoran,,Xi
| Sample_contact_email | xiq@mskcc.org
| Sample_contact_laboratory | Joan Massague
| Sample_contact_department | Cancer biology and genetics
| Sample_contact_institute | MSKCC
| Sample_contact_address | 1275, York ave.
| Sample_contact_city | New York
| Sample_contact_state | NY
| Sample_contact_zip/postal_code | 10065
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275311/suppl/GSM275311.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275311/suppl/GSM275311.CHP.gz
| Sample_series_id | GSE10847
| Sample_data_row_count | 54675
| |
|
GSM275312 | GPL570 |
|
H522-BRG1-v-Tb
|
H522 lung cancer cell
|
BRG1 was put back to H522 cells. The cells were treated with TGFbeta for 2h.
|
H522 cells with expression of BRG1 were treated with TGFbeta for 2 h.
|
Sample_geo_accession | GSM275312
| Sample_status | Public on Mar 18 2008
| Sample_submission_date | Mar 14 2008
| Sample_last_update_date | Mar 17 2008
| 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 | USB total RNA extraction kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 10 ug of total RNA using the standard labeling techniques for affymetrix chips
| Sample_hyb_protocol | 10 ug cRNA were hybridized to the affymetrix HG-U133 plus chips
| Sample_scan_protocol | genechips were scanned using the Hewiett-Packard genearray scanner
| Sample_data_processing | median-normalized across chips
| Sample_platform_id | GPL570
| Sample_contact_name | Qiaoran,,Xi
| Sample_contact_email | xiq@mskcc.org
| Sample_contact_laboratory | Joan Massague
| Sample_contact_department | Cancer biology and genetics
| Sample_contact_institute | MSKCC
| Sample_contact_address | 1275, York ave.
| Sample_contact_city | New York
| Sample_contact_state | NY
| Sample_contact_zip/postal_code | 10065
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275312/suppl/GSM275312.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275312/suppl/GSM275312.CHP.gz
| Sample_series_id | GSE10847
| Sample_data_row_count | 54675
| |
|
GSM275313 | GPL570 |
|
H522-TbRII-Tb
|
H522 lung cancer cell
|
TGFbRII was put back to H522 cells. Cells were treated with TGFbeta for 2h.
|
H522 cells with expression of TGFbRII were treated with TGFbeta for 2h.
|
Sample_geo_accession | GSM275313
| Sample_status | Public on Mar 18 2008
| Sample_submission_date | Mar 14 2008
| Sample_last_update_date | Mar 17 2008
| 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 | USB total RNA extraction kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 10 ug of total RNA using the standard labeling techniques for affymetrix chips
| Sample_hyb_protocol | 10 ug cRNA were hybridized to the affymetrix HG-U133 plus chips
| Sample_scan_protocol | genechips were scanned using the Hewiett-Packard genearray scanner
| Sample_data_processing | median-normalized across chips
| Sample_platform_id | GPL570
| Sample_contact_name | Qiaoran,,Xi
| Sample_contact_email | xiq@mskcc.org
| Sample_contact_laboratory | Joan Massague
| Sample_contact_department | Cancer biology and genetics
| Sample_contact_institute | MSKCC
| Sample_contact_address | 1275, York ave.
| Sample_contact_city | New York
| Sample_contact_state | NY
| Sample_contact_zip/postal_code | 10065
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275313/suppl/GSM275313.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275313/suppl/GSM275313.CHP.gz
| Sample_series_id | GSE10847
| Sample_data_row_count | 54675
| |
|
GSM275314 | GPL570 |
|
H522-TbRII
|
H522 lung cancer cell
|
TGFbRII was put back to H522 cells. Cells were untreated.
|
H522 cells with expression of TGFbRII were untreated.
|
Sample_geo_accession | GSM275314
| Sample_status | Public on Mar 18 2008
| Sample_submission_date | Mar 14 2008
| Sample_last_update_date | Mar 17 2008
| 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 | USB total RNA extraction kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 10 ug of total RNA using the standard labeling techniques for affymetrix chips
| Sample_hyb_protocol | 10 ug cRNA were hybridized to the affymetrix HG-U133 plus chips
| Sample_scan_protocol | genechips were scanned using the Hewiett-Packard genearray scanner
| Sample_data_processing | median-normalized across chips
| Sample_platform_id | GPL570
| Sample_contact_name | Qiaoran,,Xi
| Sample_contact_email | xiq@mskcc.org
| Sample_contact_laboratory | Joan Massague
| Sample_contact_department | Cancer biology and genetics
| Sample_contact_institute | MSKCC
| Sample_contact_address | 1275, York ave.
| Sample_contact_city | New York
| Sample_contact_state | NY
| Sample_contact_zip/postal_code | 10065
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275314/suppl/GSM275314.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM275nnn/GSM275314/suppl/GSM275314.CHP.gz
| Sample_series_id | GSE10847
| 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 |
|
|