Search results for the GEO ID: GSE33643  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM832047 | GPL570 |
|
A2058, DMSO treat, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): control (DMSO)
concentration: control
|
A2058-DMSO-1
|
| Sample_geo_accession | GSM832047
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832047/suppl/GSM832047.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832048 | GPL570 |
|
A2058, DMSO treat, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): control (DMSO)
concentration: control
|
A2058-DMSO-2
|
| Sample_geo_accession | GSM832048
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832048/suppl/GSM832048.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832049 | GPL570 |
|
A2058, DMSO treat, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): control (DMSO)
concentration: control
|
A2058-DMSO-3
|
| Sample_geo_accession | GSM832049
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832049/suppl/GSM832049.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832050 | GPL570 |
|
A2058, DMSO treat, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): control (DMSO)
concentration: control
|
A2058-DMSO-4
|
| Sample_geo_accession | GSM832050
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832050/suppl/GSM832050.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832051 | GPL570 |
|
A2058, BKM120 treat, IC30 conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC30
|
A2058-BKM120-IC30-1
|
| Sample_geo_accession | GSM832051
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832051/suppl/GSM832051.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832052 | GPL570 |
|
A2058, BKM120 treat, IC30 conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC30
|
A2058-BKM120-IC30-2
|
| Sample_geo_accession | GSM832052
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832052/suppl/GSM832052.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832053 | GPL570 |
|
A2058, BKM120 treat, IC30 conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC30
|
A2058-BKM120-IC30-3
|
| Sample_geo_accession | GSM832053
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832053/suppl/GSM832053.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832054 | GPL570 |
|
A2058, BKM120 treat, IC30 conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC30
|
A2058-BKM120-IC30-4
|
| Sample_geo_accession | GSM832054
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832054/suppl/GSM832054.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832055 | GPL570 |
|
A2058, BKM120 treat, IC50 conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC50
|
A2058-BKM120-IC50-1
|
| Sample_geo_accession | GSM832055
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832055/suppl/GSM832055.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832056 | GPL570 |
|
A2058, BKM120 treat, IC50 conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC50
|
A2058-BKM120-IC50-2
|
| Sample_geo_accession | GSM832056
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832056/suppl/GSM832056.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832057 | GPL570 |
|
A2058, BKM120 treat, IC50 conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC50
|
A2058-BKM120-IC50-3
|
| Sample_geo_accession | GSM832057
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832057/suppl/GSM832057.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832058 | GPL570 |
|
A2058, BKM120 treat, IC50 conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC50
|
A2058-BKM120-IC50-4
|
| Sample_geo_accession | GSM832058
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832058/suppl/GSM832058.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832059 | GPL570 |
|
A2058, BKM120 treat, max conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC90 (max)
|
A2058-BKM120-IC90/MAX-1
|
| Sample_geo_accession | GSM832059
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832059/suppl/GSM832059.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832060 | GPL570 |
|
A2058, BKM120 treat, max conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC90 (max)
|
A2058-BKM120-IC90/MAX-2
|
| Sample_geo_accession | GSM832060
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832060/suppl/GSM832060.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832061 | GPL570 |
|
A2058, BKM120 treat, max conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC90 (max)
|
A2058-BKM120-IC90/MAX-3
|
| Sample_geo_accession | GSM832061
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832061/suppl/GSM832061.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832062 | GPL570 |
|
A2058, BKM120 treat, max conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BKM120
concentration: IC90 (max)
|
A2058-BKM120-IC90/MAX-4
|
| Sample_geo_accession | GSM832062
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832062/suppl/GSM832062.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832063 | GPL570 |
|
A2058, BEZ235 treat, IC50 conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC50
|
A2058-BEZ235-IC50-1
|
| Sample_geo_accession | GSM832063
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832063/suppl/GSM832063.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832064 | GPL570 |
|
A2058, BEZ235 treat, IC50 conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC50
|
A2058-BEZ235-IC50-2
|
| Sample_geo_accession | GSM832064
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832064/suppl/GSM832064.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832065 | GPL570 |
|
A2058, BEZ235 treat, IC50 conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC50
|
A2058-BEZ235-IC50-3
|
| Sample_geo_accession | GSM832065
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832065/suppl/GSM832065.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832066 | GPL570 |
|
A2058, BEZ235 treat, IC50 conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC50
|
A2058-BEZ235-IC50-4
|
| Sample_geo_accession | GSM832066
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832066/suppl/GSM832066.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832067 | GPL570 |
|
A2058, BEZ235 treat, IC90 conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC90
|
A2058-BEZ235-IC90-1
|
| Sample_geo_accession | GSM832067
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832067/suppl/GSM832067.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832068 | GPL570 |
|
A2058, BEZ235 treat, IC90 conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC90
|
A2058-BEZ235-IC90-2
|
| Sample_geo_accession | GSM832068
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832068/suppl/GSM832068.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832069 | GPL570 |
|
A2058, BEZ235 treat, IC90 conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC90
|
A2058-BEZ235-IC90-3
|
| Sample_geo_accession | GSM832069
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832069/suppl/GSM832069.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832070 | GPL570 |
|
A2058, BEZ235 treat, IC90 conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: IC90
|
A2058-BEZ235-IC90-4
|
| Sample_geo_accession | GSM832070
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832070/suppl/GSM832070.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832071 | GPL570 |
|
A2058, BEZ235 treat, max conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: max
|
A2058-BEZ235-MAX-1
|
| Sample_geo_accession | GSM832071
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832071/suppl/GSM832071.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832072 | GPL570 |
|
A2058, BEZ235 treat, max conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: max
|
A2058-BEZ235-MAX-2
|
| Sample_geo_accession | GSM832072
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832072/suppl/GSM832072.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832073 | GPL570 |
|
A2058, BEZ235 treat, max conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: max
|
A2058-BEZ235-MAX-3
|
| Sample_geo_accession | GSM832073
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832073/suppl/GSM832073.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832074 | GPL570 |
|
A2058, BEZ235 treat, max conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): BEZ235
concentration: max
|
A2058-BEZ235-MAX-4
|
| Sample_geo_accession | GSM832074
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832074/suppl/GSM832074.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832075 | GPL570 |
|
A2058, GCD0941 treat, IC50 conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC50
|
A2058-GDC0941-IC50-1
|
| Sample_geo_accession | GSM832075
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832075/suppl/GSM832075.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832076 | GPL570 |
|
A2058, GCD0941 treat, IC50 conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC50
|
A2058-GDC0941-IC50-2
|
| Sample_geo_accession | GSM832076
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832076/suppl/GSM832076.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832077 | GPL570 |
|
A2058, GCD0941 treat, IC50 conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC50
|
A2058-GDC0941-IC50-3
|
| Sample_geo_accession | GSM832077
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832077/suppl/GSM832077.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832078 | GPL570 |
|
A2058, GCD0941 treat, IC50 conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC50
|
A2058-GDC0941-IC50-4
|
| Sample_geo_accession | GSM832078
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832078/suppl/GSM832078.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832079 | GPL570 |
|
A2058, GCD0941 treat, IC90 conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC90
|
A2058-GDC0941-IC90-1
|
| Sample_geo_accession | GSM832079
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832079/suppl/GSM832079.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832080 | GPL570 |
|
A2058, GCD0941 treat, IC90 conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC90
|
A2058-GDC0941-IC90-2
|
| Sample_geo_accession | GSM832080
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832080/suppl/GSM832080.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832081 | GPL570 |
|
A2058, GCD0941 treat, IC90 conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC90
|
A2058-GDC0941-IC90-3
|
| Sample_geo_accession | GSM832081
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832081/suppl/GSM832081.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832082 | GPL570 |
|
A2058, GCD0941 treat, IC90 conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: IC90
|
A2058-GDC0941-IC90-4
|
| Sample_geo_accession | GSM832082
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832082/suppl/GSM832082.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832083 | GPL570 |
|
A2058, GCD0941 treat, max conc, biol rep 1
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: max
|
A2058-GDC0941-MAX-1
|
| Sample_geo_accession | GSM832083
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832083/suppl/GSM832083.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832084 | GPL570 |
|
A2058, GCD0941 treat, max conc, biol rep 2
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: max
|
A2058-GDC0941-MAX-2
|
| Sample_geo_accession | GSM832084
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832084/suppl/GSM832084.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832085 | GPL570 |
|
A2058, GCD0941 treat, max conc, biol rep 3
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: max
|
A2058-GDC0941-MAX-3
|
| Sample_geo_accession | GSM832085
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832085/suppl/GSM832085.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
GSM832086 | GPL570 |
|
A2058, GCD0941 treat, max conc, biol rep 4
|
Immortalized cell line
|
cell line: A2058 melanoma cell line
agent (pi3k inhibitor): GCD0941
concentration: max
|
A2058-GDC0941-MAX-4
|
| Sample_geo_accession | GSM832086
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Nov 12 2011
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | treatment frequency: 1; treatment duration: 24h
| | Sample_growth_protocol_ch1 | A2058 cell lines are grown in DMEM, high glucose, 10% FCS, 1% pyruvate, 2% glutamine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according to the manufacturer's instructions (Qiagen: RNAeasy).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 50 ng of total RNA were amplified with the Nugen Ovation RNA Amplification System followed by a Ovation WB treatment. Biotinilated cRNA were then prepared using the FL cDNA Biotin Module V2 kit.
| | Sample_hyb_protocol | Following fragmentation and labeling, 3.4 µg of cRNA were hybridized to the arrays following the manufaturer's instructions. Arrays were washed and stained in the Affymetrix Fluidics Station 450
| | Sample_scan_protocol | Arrays were scanned using the GeneChip Scanner 3000
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using 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 | Saskia,Maria,Brachmann
| | Sample_contact_email | saskia.brachmann@novartis.com
| | Sample_contact_phone | +4161 696 4063
| | Sample_contact_laboratory | Brachmann
| | Sample_contact_department | Oncology Basel
| | Sample_contact_institute | NIBR
| | Sample_contact_address | Klybeckstrasse 141
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4002
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM832nnn/GSM832086/suppl/GSM832086.cel.gz
| | Sample_series_id | GSE33643
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
Enter the group name here: |
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