Search results for the GEO ID: GSE39904  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM981116 | GPL570 |
|
SW480 siGFP, biological replicate A
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with Control siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with Control siRNA
|
Gene expression data from control SW480 cells
|
| Sample_geo_accession | GSM981116
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981116/suppl/GSM981116_L01_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981117 | GPL570 |
|
SW480 siGFP, biological replicate B
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with Control siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with Control siRNA
|
Gene expression data from control SW480 cells
|
| Sample_geo_accession | GSM981117
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981117/suppl/GSM981117_L02_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981118 | GPL570 |
|
SW480 siGFP, biological replicate C
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with Control siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with Control siRNA
|
Gene expression data from control SW480 cells
|
| Sample_geo_accession | GSM981118
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981118/suppl/GSM981118_L03_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981119 | GPL570 |
|
SW480 siGFP, biological replicate D
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with Control siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with Control siRNA
|
Gene expression data from control SW480 cells
|
| Sample_geo_accession | GSM981119
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981119/suppl/GSM981119_L04_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981120 | GPL570 |
|
SW480 siTAZ, biological replicate A
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with TAZ siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with TAZ siRNA
|
Gene expression data from SW480 cells depleted of TAZ
|
| Sample_geo_accession | GSM981120
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981120/suppl/GSM981120_L05_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981121 | GPL570 |
|
SW480 siTAZ, biological replicate B
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with TAZ siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with TAZ siRNA
|
Gene expression data from SW480 cells depleted of TAZ
|
| Sample_geo_accession | GSM981121
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981121/suppl/GSM981121_L06_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981122 | GPL570 |
|
SW480 siTAZ, biological replicate C
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with TAZ siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with TAZ siRNA
|
Gene expression data from SW480 cells depleted of TAZ
|
| Sample_geo_accession | GSM981122
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981122/suppl/GSM981122_L07_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981123 | GPL570 |
|
SW480 siTAZ, biological replicate D
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with TAZ siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with TAZ siRNA
|
Gene expression data from SW480 cells depleted of TAZ
|
| Sample_geo_accession | GSM981123
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981123/suppl/GSM981123_L08_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981124 | GPL570 |
|
SW480 sibcat, biological replicate A
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with beta-catenin siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with beta-catenin siRNA
|
Gene expression data from SW480 cells depleted of b-catenin
|
| Sample_geo_accession | GSM981124
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981124/suppl/GSM981124_L09_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981125 | GPL570 |
|
SW480 sibcat, biological replicate B
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with beta-catenin siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with beta-catenin siRNA
|
Gene expression data from SW480 cells depleted of b-catenin
|
| Sample_geo_accession | GSM981125
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981125/suppl/GSM981125_L10_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981126 | GPL570 |
|
SW480 sibcat, biological replicate C
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with beta-catenin siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with beta-catenin siRNA
|
Gene expression data from SW480 cells depleted of b-catenin
|
| Sample_geo_accession | GSM981126
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981126/suppl/GSM981126_L11_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981127 | GPL570 |
|
SW480 sibcat, biological replicate D
|
human colorectal cancer cell line SW480, stably transfected with empty vector, transfected with beta-catenin siRNA
|
cell line: SW480
treatment: stably transfected with empty vector, transfected with beta-catenin siRNA
|
Gene expression data from SW480 cells depleted of b-catenin
|
| Sample_geo_accession | GSM981127
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981127/suppl/GSM981127_L12_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981128 | GPL570 |
|
SW480 APC, biological replicate A
|
human colorectal cancer cell line SW480, stably transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
cell line: SW480
treatment: transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
Gene expression data from SW480 cells reconstituted with wild-type APC
|
| Sample_geo_accession | GSM981128
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981128/suppl/GSM981128_L13_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981129 | GPL570 |
|
SW480 APC, biological replicate B
|
human colorectal cancer cell line SW480, stably transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
cell line: SW480
treatment: transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
Gene expression data from SW480 cells reconstituted with wild-type APC
|
| Sample_geo_accession | GSM981129
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981129/suppl/GSM981129_L14_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981130 | GPL570 |
|
SW480 APC, biological replicate C
|
human colorectal cancer cell line SW480, stably transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
cell line: SW480
treatment: transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
Gene expression data from SW480 cells reconstituted with wild-type APC
|
| Sample_geo_accession | GSM981130
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981130/suppl/GSM981130_L15_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
GSM981131 | GPL570 |
|
SW480 APC, biological replicate D
|
human colorectal cancer cell line SW480, stably transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
cell line: SW480
treatment: transfected with wild-type APC-expressing vector, transfected with Control siRNA
|
Gene expression data from SW480 cells reconstituted with wild-type APC
|
| Sample_geo_accession | GSM981131
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Aug 06 2012
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were transfected with siRNA by using RNAi MAX (Life Technologies), following manifacturer's instructions
| | Sample_growth_protocol_ch1 | SW480 cells were cultured in RPMI 1640 with 10% FBS, glutamine and antibiotics, freshly supplemented with insulin, hydrocortisone, 1-thyoglicerol
| | 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_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 affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
| | Sample_data_processing | RMA of .CEL files using affy Bioconductor 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/GSM981nnn/GSM981131/suppl/GSM981131_L16_P_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE39904
| | Sample_series_id | GSE39907
| | Sample_data_row_count | 54675
| | |
|
| |
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