Search results for the GEO ID: GSE39091  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM956033 | GPL570 |
|
GL2 siRNA_DMSO_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956033
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956033/suppl/GSM956033_H0040596_NAE080066.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956034 | GPL570 |
|
GL2 siRNA_DMSO_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956034
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956034/suppl/GSM956034_H0040597_NAE080067.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956035 | GPL570 |
|
GL2 siRNA_DMSO_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956035
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956035/suppl/GSM956035_H0040598_NAE080068.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956036 | GPL570 |
|
p53 siRNA_DMSO_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956036
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956036/suppl/GSM956036_H0040599_NAE080069.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956037 | GPL570 |
|
p53 siRNA_DMSO_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956037
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956037/suppl/GSM956037_H0040600_NAE080070.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956038 | GPL570 |
|
p53 siRNA_DMSO_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956038
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956038/suppl/GSM956038_H0040601_NAE080071.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956039 | GPL570 |
|
GL2 siRNA_Daunorubicin_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 100nM Daunorubicin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956039
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956039/suppl/GSM956039_H0040602_NAE080072.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956040 | GPL570 |
|
GL2 siRNA_Daunorubicin_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 100nM Daunorubicin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956040
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956040/suppl/GSM956040_H0040603_NAE080073.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956041 | GPL570 |
|
GL2 siRNA_Daunorubicin_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 100nM Daunorubicin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956041
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956041/suppl/GSM956041_H0040604_NAE080074.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956042 | GPL570 |
|
p53 siRNA_Daunorubicin_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 100nM Daunorubicin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956042
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956042/suppl/GSM956042_H0040605_NAE080075.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956043 | GPL570 |
|
p53 siRNA_Daunorubicin_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 100nM Daunorubicin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956043
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956043/suppl/GSM956043_H0040606_NAE080076.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956044 | GPL570 |
|
p53 siRNA_Daunorubicin_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 100nM Daunorubicin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956044
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956044/suppl/GSM956044_H0040607_NAE080077.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956045 | GPL570 |
|
GL2 siRNA_Nutlin_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 5uM Nutlin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956045
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956045/suppl/GSM956045_H0040608_NAE080078.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956046 | GPL570 |
|
GL2 siRNA_Nutlin_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 5uM Nutlin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956046
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956046/suppl/GSM956046_H0040609_NAE080079.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956047 | GPL570 |
|
GL2 siRNA_Nutlin_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 5uM Nutlin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956047
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956047/suppl/GSM956047_H0040610_NAE080080.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956048 | GPL570 |
|
p53 siRNA_Nutlin_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 5uM Nutlin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956048
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956048/suppl/GSM956048_H0040611_NAE080081.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956049 | GPL570 |
|
p53 siRNA_Nutlin_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 5uM Nutlin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956049
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956049/suppl/GSM956049_H0040612_NAE080082.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956050 | GPL570 |
|
p53 siRNA_Nutlin_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 5uM Nutlin for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956050
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956050/suppl/GSM956050_H0040613_NAE080083.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956051 | GPL570 |
|
GL2 siRNA_DMSO_26h_1_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956051
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956051/suppl/GSM956051_H0040621_NAE079769.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956052 | GPL570 |
|
GL2 siRNA_DMSO_26h_2_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956052
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956052/suppl/GSM956052_H0040622_NAE079770.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956053 | GPL570 |
|
GL2 siRNA_DMSO_26h_3-2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956053
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956053/suppl/GSM956053_H0040623_NAE079771.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956054 | GPL570 |
|
GL2 siRNA_MLN4924_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956054
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956054/suppl/GSM956054_H0040624_NAE079772.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956055 | GPL570 |
|
GL2 siRNA_MLN4924_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956055
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956055/suppl/GSM956055_H0040625_NAE079773.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956056 | GPL570 |
|
GL2 siRNA_MLN4924_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: GL2
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956056
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956056/suppl/GSM956056_H0040626_NAE079774.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956057 | GPL570 |
|
CDT1 siRNA_DMSO_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: CDT1
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956057
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956057/suppl/GSM956057_H0040627_NAE079775.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956058 | GPL570 |
|
CDT1 siRNA_DMSO_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: CDT1
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956058
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956058/suppl/GSM956058_H0040628_NAE079776.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956059 | GPL570 |
|
CDT1 siRNA_DMSO_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: CDT1
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956059
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956059/suppl/GSM956059_H0040629_NAE079777.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956060 | GPL570 |
|
CDT1 siRNA_MLN4924_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: CDT1
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956060
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956060/suppl/GSM956060_H0040630_NAE079778.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956061 | GPL570 |
|
CDT1 siRNA_MLN4924_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: CDT1
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956061
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956061/suppl/GSM956061_H0040631_NAE079779.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956062 | GPL570 |
|
CDT1 siRNA_MLN4924_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: CDT1
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956062
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956062/suppl/GSM956062_H0040632_NAE079780.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956063 | GPL570 |
|
p53 siRNA_DMSO_26h_1_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956063
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956063/suppl/GSM956063_H0040633_NAE079781.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956064 | GPL570 |
|
p53 siRNA_DMSO_26h_2_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956064
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956064/suppl/GSM956064_H0040634_NAE079782.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956066 | GPL570 |
|
p53 siRNA_MLN4924_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956066
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956066/suppl/GSM956066_H0040636_NAE079784.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956067 | GPL570 |
|
p53 siRNA_MLN4924_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956067
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956067/suppl/GSM956067_H0040637_NAE079785.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956068 | GPL570 |
|
p53 siRNA_MLN4924_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: p53
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956068
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956068/suppl/GSM956068_H0040638_NAE079786.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956069 | GPL570 |
|
BRCA1 siRNA_DMSO_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: BRCA1
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956069
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956069/suppl/GSM956069_H0040639_NAE079787.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956070 | GPL570 |
|
BRCA1 siRNA_DMSO_26h_2
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: BRCA1
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956070
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956070/suppl/GSM956070_H0040640_NAE079788.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956071 | GPL570 |
|
BRCA1 siRNA_DMSO_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: BRCA1
treatment: 0.065% DMSO for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956071
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956071/suppl/GSM956071_H0040641_NAE079789.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956072 | GPL570 |
|
BRCA1 siRNA_MLN4924_26h_1
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: BRCA1
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956072
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956072/suppl/GSM956072_H0040642_NAE079790.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956073 | GPL570 |
|
BRCA1 siRNA_MLN4924_26h_2
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Cell culture of Melanoma Cell Line - A375
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cell line: A375
transfection: BRCA1
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956073
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956073/suppl/GSM956073_H0040643_NAE079791.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
|
GSM956074 | GPL570 |
|
BRCA1 siRNA_MLN4924_26h_3
|
Cell culture of Melanoma Cell Line - A375
|
cell line: A375
transfection: BRCA1
treatment: 650nM MLN4924 for 26 hours
|
Gene expression data from treated cells
|
| Sample_geo_accession | GSM956074
| | Sample_status | Public on Jul 04 2012
| | Sample_submission_date | Jul 03 2012
| | Sample_last_update_date | Jul 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | siRNA transfected for 48hrs, then 27,000 A375 cells were treated with 0.065% DMSO, 650nM MLN4924, 5uM Nutlin or 100nM Daunorubicin and incubated for 26 hours before recovery for RNA isolation and Gene Expression.
| | Sample_growth_protocol_ch1 | A375 cells were maintained at 37°C in DMEM medium supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine and 100 U/ml penicillin/100 g/ml streptomycin (Invitrogen).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were precipitated, PBS washed, lysed using Qiagen RLT Buffer, and then RNA was extracted with Ambion MegaMax kit using King Fisher automated platform. All protocoles were executed following manufacturers recommendations.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using modified MesageAmp-based protocols (Ambion Inc) from 1.5ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133Plus 2.0 Array in an Affymetrix Model 640 hybridization oven . GeneChips were washed and stained on an Affymetrix FS450 station.
| | Sample_scan_protocol | The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Expression Console software from Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hugues,,Bernard
| | Sample_contact_email | bernard@mpi.com
| | Sample_contact_department | Molecular Pathology
| | Sample_contact_institute | Millennium: The Takeda Oncology company
| | Sample_contact_address | 35 Landsdowne St.
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02139
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM956nnn/GSM956074/suppl/GSM956074_H0040644_NAE079792.CEL.gz
| | Sample_series_id | GSE39091
| | Sample_data_row_count | 54675
| | |
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