Search results for the GEO ID: GSE26525  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM652214 | GPL570 |
|
A549_dmso_24h_rep1
|
A549 cells, 24h growth in presence of vehicle
|
tissue: lung epithelial
cell line: A549
agent: DMSO
time point: 24h
|
|
| Sample_geo_accession | GSM652214
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652214/suppl/GSM652214.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652214/suppl/GSM652214.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652215 | GPL570 |
|
A549_dmso_24h_rep2
|
A549 cells, 24h growth in presence of vehicle
|
tissue: lung epithelial
cell line: A549
agent: DMSO
time point: 24h
|
|
| Sample_geo_accession | GSM652215
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652215/suppl/GSM652215.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652215/suppl/GSM652215.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652216 | GPL570 |
|
A549_dmso_24h_rep3
|
A549 cells, 24h growth in presence of vehicle
|
tissue: lung epithelial
cell line: A549
agent: DMSO
time point: 24h
|
|
| Sample_geo_accession | GSM652216
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652216/suppl/GSM652216.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652216/suppl/GSM652216.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652217 | GPL570 |
|
A549_Geld_IC50_24h_rep1
|
A549 cells, 24h growth in presence of Geld, IC50
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC50
time point: 24h
|
|
| Sample_geo_accession | GSM652217
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652217/suppl/GSM652217.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652217/suppl/GSM652217.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652218 | GPL570 |
|
A549_Geld_IC50_24h_rep2
|
A549 cells, 24h growth in presence of Geld, IC50
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC50
time point: 24h
|
|
| Sample_geo_accession | GSM652218
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652218/suppl/GSM652218.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652218/suppl/GSM652218.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652219 | GPL570 |
|
A549_Geld_IC50_24h_rep3
|
A549 cells, 24h growth in presence of Geld, IC50
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC50
time point: 24h
|
|
| Sample_geo_accession | GSM652219
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652219/suppl/GSM652219.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652219/suppl/GSM652219.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652220 | GPL570 |
|
A549_dmso_48h_rep1
|
A549 cells, 48h growth in presence of vehicle
|
tissue: lung epithelial
cell line: A549
agent: DMSO
time point: 48h
|
|
| Sample_geo_accession | GSM652220
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652220/suppl/GSM652220.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652220/suppl/GSM652220.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652221 | GPL570 |
|
A549_dmso_48h_rep2
|
A549 cells, 48h growth in presence of vehicle
|
tissue: lung epithelial
cell line: A549
agent: DMSO
time point: 48h
|
|
| Sample_geo_accession | GSM652221
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652221/suppl/GSM652221.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652221/suppl/GSM652221.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652222 | GPL570 |
|
A549_dmso_48h_rep3
|
A549 cells, 48h growth in presence of vehicle
|
tissue: lung epithelial
cell line: A549
agent: DMSO
time point: 48h
|
|
| Sample_geo_accession | GSM652222
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652222/suppl/GSM652222.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652222/suppl/GSM652222.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652223 | GPL570 |
|
A549_Geld_IC20_48h_rep1
|
A549 cells, 48h growth in presence of Geld, IC20
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC20
time point: 48h
|
|
| Sample_geo_accession | GSM652223
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652223/suppl/GSM652223.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652223/suppl/GSM652223.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652224 | GPL570 |
|
A549_Geld_IC20_48h_rep2
|
A549 cells, 48h growth in presence of Geld, IC20
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC20
time point: 48h
|
|
| Sample_geo_accession | GSM652224
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652224/suppl/GSM652224.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652224/suppl/GSM652224.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652225 | GPL570 |
|
A549_Geld_IC20_48h_rep3
|
A549 cells, 48h growth in presence of Geld, IC20
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC20
time point: 48h
|
|
| Sample_geo_accession | GSM652225
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652225/suppl/GSM652225.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652225/suppl/GSM652225.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652226 | GPL570 |
|
A549_Geld_IC50_48h_rep1
|
A549 cells, 48h growth in presence of Geld, IC50
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC50
time point: 48h
|
|
| Sample_geo_accession | GSM652226
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652226/suppl/GSM652226.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652226/suppl/GSM652226.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652227 | GPL570 |
|
A549_Geld_IC50_48h_rep2
|
A549 cells, 48h growth in presence of Geld, IC50
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC50
time point: 48h
|
|
| Sample_geo_accession | GSM652227
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652227/suppl/GSM652227.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652227/suppl/GSM652227.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
GSM652228 | GPL570 |
|
A549_Geld_IC50_48h_rep3
|
A549 cells, 48h growth in presence of Geld, IC50
|
tissue: lung epithelial
cell line: A549
agent: geldanamycin, IC50
time point: 48h
|
|
| Sample_geo_accession | GSM652228
| | Sample_status | Public on Jan 11 2011
| | Sample_submission_date | Jan 10 2011
| | Sample_last_update_date | Jan 11 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A549 cells were seeded 24 h prior treatment with vehicle (DMSO) or geldanamycin. After the appropriate time point, the medium was collected and confluent cells were trypsinized and frozen in liquid nitrogen until RNA extraction.
| | Sample_growth_protocol_ch1 | A549 cells were maintained in DMEM medium supplemented with 10% FBS, and 10 ug/mL penicillin-streptomycin. Cells were harvested with trypsin prior to use in micrarrray experiments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Rneasy Mini kit (Qiagen) according to manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix 3' IVT Express Kit was used to generate and biotin-label cRNA according to manufacturer's protocol.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on HG_U133_2.0_Plus cartridge arrays (Affymetrix Hybridization Oven 645). Arrays were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000.
| | Sample_data_processing = The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. [program-name = Expression Console, program-version | 1.1.2800.19935]
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lisa,,Christadore
| | Sample_contact_email | lmc1@bu.edu
| | Sample_contact_laboratory | Professor Scott Schaus
| | Sample_contact_department | Chemistry
| | Sample_contact_institute | Boston University
| | Sample_contact_address | 24 Cummington Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02215
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652228/suppl/GSM652228.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM652nnn/GSM652228/suppl/GSM652228.chp.gz
| | Sample_series_id | GSE26525
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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