Search results for the GEO ID: GSE14491 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM361954 | GPL570 |
|
MDA shGFP, untreated, biological replicate A
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), untreated, control MDA-MB-231 cells
|
control cells
untreated
|
Gene expression data from untreated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361954
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361954/suppl/GSM361954.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361955 | GPL570 |
|
MDA shGFP, untreated, biological replicate B
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), untreated, control MDA-MB-231 cells
|
control cells
untreated
|
Gene expression data from untreated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361955
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361955/suppl/GSM361955.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361956 | GPL570 |
|
MDA shGFP, untreated, biological replicate C
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), untreated, control MDA-MB-231 cells
|
control cells
untreated
|
Gene expression data from untreated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361956
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361956/suppl/GSM361956.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361957 | GPL570 |
|
MDA shGFP, untreated, biological replicate D
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), untreated, control MDA-MB-231 cells
|
control cells
untreated
|
Gene expression data from untreated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361957
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361957/suppl/GSM361957.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361958 | GPL570 |
|
MDA shGFP, TGFbeta treated, biological replicate A
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), treated with TGFbeta (5ug/ml) for 3 hrs, control MDA-MB-231 cells
|
control cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361958
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361958/suppl/GSM361958.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361959 | GPL570 |
|
MDA shGFP, TGFbeta treated, biological replicate B
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), treated with TGFbeta (5ug/ml) for 3 hrs, control MDA-MB-231 cells
|
control cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361959
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361959/suppl/GSM361959.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361960 | GPL570 |
|
MDA shGFP, TGFbeta treated, biological replicate C
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), treated with TGFbeta (5ug/ml) for 3 hrs, control MDA-MB-231 cells
|
control cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361960
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361960/suppl/GSM361960.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361961 | GPL570 |
|
MDA shGFP, TGFbeta treated, biological replicate D
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against GFP (shGFP), treated with TGFbeta (5ug/ml) for 3 hrs, control MDA-MB-231 cells
|
control cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated control MDA-MB-231 cells
|
Sample_geo_accession | GSM361961
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361961/suppl/GSM361961.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361962 | GPL570 |
|
MDA shp53, untreated, biological replicate A
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), untreated, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
untreated
|
Gene expression data from untreated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361962
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361962/suppl/GSM361962.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361963 | GPL570 |
|
MDA shp53, untreated, biological replicate B
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), untreated, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
untreated
|
Gene expression data from untreated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361963
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361963/suppl/GSM361963.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361964 | GPL570 |
|
MDA shp53, untreated, biological replicate C
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), untreated, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
untreated
|
Gene expression data from untreated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361964
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361964/suppl/GSM361964.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361965 | GPL570 |
|
MDA shp53, untreated, biological replicate D
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), untreated, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
untreated
|
Gene expression data from untreated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361965
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361965/suppl/GSM361965.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361966 | GPL570 |
|
MDA shp53, TGFbeta treated, biological replicate A
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), treated with TGFbeta (5ug/ml) for 3 hrs, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361966
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361966/suppl/GSM361966.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361967 | GPL570 |
|
MDA shp53, TGFbeta treated, biological replicate B
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), treated with TGFbeta (5ug/ml) for 3 hrs, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361967
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361967/suppl/GSM361967.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361968 | GPL570 |
|
MDA shp53, TGFbeta treated, biological replicate C
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), treated with TGFbeta (5ug/ml) for 3 hrs, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361968
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361968/suppl/GSM361968.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
GSM361969 | GPL570 |
|
MDA shp53, TGFbeta treated, biological replicate D
|
human metastatic breast cell line MDA-MB-231, infected with a Retroviral construct expressing small-hairpin RNA against TP53 (shp53), treated with TGFbeta (5ug/ml) for 3 hrs, mutant-p53 depleted MDA-MB-231 cells
|
mutant-p53 depleted cells
TGFbeta treated
|
Gene expression data from TGFbeta-treated mutantp53-depleted MDA-MB-231 cells
|
Sample_geo_accession | GSM361969
| Sample_status | Public on Apr 03 2009
| Sample_submission_date | Jan 21 2009
| Sample_last_update_date | Mar 25 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were serum starved for 24 hours and then treated in DMEM/F12 without serum
| Sample_growth_protocol_ch1 | MDA-MB-231 were maintained in a 1:1 mixture of DMEM and F12 (DMEM/F12) supplemented with 10% serum and 2 mM glutamine.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the BioArrayTM HighYieldTM RNA Transcript Labeling Kit (ENZO Biochem, New York, NY) according to manufacturer's intructions.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome HG-U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | Standard Affymetrix scanning procedures on a GCS3000 7G Affymetrix scanner operated by GCOS, GeneChip Operating Software
| Sample_data_processing | RMA of .CEL files using Bioconductor affy library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| Sample_platform_id | GPL570
| Sample_contact_name | Silvio,,Bicciato
| Sample_contact_email | silvio.bicciato@unimore.it
| Sample_contact_phone | +39-059-205-5219
| Sample_contact_fax | +39-029-205-5410
| Sample_contact_laboratory | Center for Genome Research
| Sample_contact_department | Life Sciences
| Sample_contact_institute | University of Modena and Reggio Emilia
| Sample_contact_address | via Campi, 287
| Sample_contact_city | Modena
| Sample_contact_zip/postal_code | 41100
| Sample_contact_country | Italy
| Sample_contact_web_link | http://www.cgr.unimore.it/cgi-bin/cgr/persone.pl/Show?_id=sbicciat&sort=DEFAULT&search=&hits=80
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM361nnn/GSM361969/suppl/GSM361969.CEL.gz
| Sample_series_id | GSE14491
| Sample_data_row_count | 54675
| |
|
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