Search results for the GEO ID: GSE26748  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM658297 | GPL570 |
|
SiHa cells 24h growth 1a-SiHa 1a
|
SiHa cells, 24h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 24h growth
|
Control 24h
|
| Sample_geo_accession | GSM658297
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 24 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent (Invitrogen) for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658297/suppl/GSM658297_hyb7070.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658298 | GPL570 |
|
SiHa cells 24h growth + 50 µg/ml cidofovir 2a-SiHa 2a
|
SiHa cells, 24h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 24h growth
treatment: 50 µg/ml cidofovir
|
Test 24h
|
| Sample_geo_accession | GSM658298
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 24 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658298/suppl/GSM658298_hyb7071.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658299 | GPL570 |
|
SiHa cells 48h growth 5a-SiHa 5a
|
SiHa cells, 48h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 48h growth
|
Control 48h
|
| Sample_geo_accession | GSM658299
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 48 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658299/suppl/GSM658299_hyb7072.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658300 | GPL570 |
|
SiHa cells 48h growth + 50 µg/ml cidofovir 6a-SiHa 6a
|
SiHa cells, 48h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 48h growth
treatment: 50 µg/ml cidofovir
|
Test 48h
|
| Sample_geo_accession | GSM658300
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 48 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658300/suppl/GSM658300_hyb7073.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658301 | GPL570 |
|
SiHa cells 72h growth 9a-SiHa 9a
|
SiHa cells, 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
|
Control 72h
|
| Sample_geo_accession | GSM658301
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658301/suppl/GSM658301_hyb7074.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658302 | GPL570 |
|
SiHa cells 72h growth + 50 µg/ml cidofovir 10a-SiHa 10a
|
SiHa cells, 72h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
treatment: 50 µg/ml cidofovir
|
Test 72h
|
| Sample_geo_accession | GSM658302
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658302/suppl/GSM658302_hyb7075.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658303 | GPL570 |
|
SiHa cells cidofovir resistant (#55) 72h growth 15a-SiHa 15a
|
SiHa cells, cidofovir resistant (#55), 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
phenotype: cidofovir resistant (#55)
|
HPMPC (#55) test 72h
|
| Sample_geo_accession | GSM658303
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES; selected in increasing concentrations of cidofovir, maintained in 25 µg/ml up until #53
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658303/suppl/GSM658303_hyb7076.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658304 | GPL570 |
|
SiHa cells cidofovir resistant (#230) 72h growth 16a-SiHa 16a
|
SiHa cells, cidofovir resistant (#230), 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
phenotype: cidofovir resistant (#230)
|
HPMPC (#230) test 72h
|
| Sample_geo_accession | GSM658304
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES; selected in increasing concentrations of cidofovir, maintained in 50 µg/ml up until #228
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658304/suppl/GSM658304_hyb7077.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658305 | GPL570 |
|
SiHa cells 24h growth 1b-SiHa 1b
|
SiHa cells, 24h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 24h growth
|
Control 24h
|
| Sample_geo_accession | GSM658305
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 24 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658305/suppl/GSM658305_hyb7078.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658306 | GPL570 |
|
SiHa cells 24h growth + 50 µg/ml cidofovir 2b-SiHa 2b
|
SiHa cells, 24h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 24h growth
treatment: 50 µg/ml cidofovir
|
Test 24h
|
| Sample_geo_accession | GSM658306
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 24 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658306/suppl/GSM658306_hyb7079.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658307 | GPL570 |
|
SiHa cells 48h growth 5b-SiHa 5b
|
SiHa cells, 48h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 48h growth
|
Control 48h
|
| Sample_geo_accession | GSM658307
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 48 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658307/suppl/GSM658307_hyb7080.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658308 | GPL570 |
|
SiHa cells 48h growth + 50 µg/ml cidofovir 6b-SiHa 6b
|
SiHa cells, 48h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 48h growth
treatment: 50 µg/ml cidofovir
|
Test 48h
|
| Sample_geo_accession | GSM658308
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 48 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658308/suppl/GSM658308_hyb7081.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658309 | GPL570 |
|
SiHa cells 72h growth 9b-SiHa 9b
|
SiHa cells, 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
|
Control 72h
|
| Sample_geo_accession | GSM658309
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658309/suppl/GSM658309_hyb7082.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658310 | GPL570 |
|
SiHa cells 72h growth + 50 µg/ml cidofovir 10b-SiHa 10b
|
SiHa cells, 72h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
treatment: 50 µg/ml cidofovir
|
Test 72h
|
| Sample_geo_accession | GSM658310
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658310/suppl/GSM658310_hyb7083.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658311 | GPL570 |
|
SiHa cells cidofovir resistant (#55) 72h growth 15b-SiHa 15b
|
SiHa cells, cidofovir resistant (#55), 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
phenotype: cidofovir resistant (#55)
|
HPMPC (#55) test 72h
|
| Sample_geo_accession | GSM658311
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES; selected in increasing concentrations of cidofovir, maintained in 25 µg/ml up until #53
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658311/suppl/GSM658311_hyb7084.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658312 | GPL570 |
|
SiHa cells cidofovir resistant (#230) 72h growth 16b-SiHa 16b
|
SiHa cells, cidofovir resistant (#230), 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
phenotype: cidofovir resistant (#230)
|
HPMPC (#230) test 72h
|
| Sample_geo_accession | GSM658312
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES; selected in increasing concentrations of cidofovir, maintained in 50 µg/ml up until #228
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658312/suppl/GSM658312_hyb7085.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658313 | GPL570 |
|
SiHa cells 24h growth 1c-SiHa 1c
|
SiHa cells, 24h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 24h growth
|
Control 24h
|
| Sample_geo_accession | GSM658313
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 24 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658313/suppl/GSM658313_hyb7086.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658314 | GPL570 |
|
SiHa cells 24h growth + 50 µg/ml cidofovir 2c-SiHa 2c
|
SiHa cells, 24h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 24h growth
treatment: 50 µg/ml cidofovir
|
Test 24h
|
| Sample_geo_accession | GSM658314
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 24 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658314/suppl/GSM658314_hyb7087.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658315 | GPL570 |
|
SiHa cells 48h growth 5c-SiHa 5c
|
SiHa cells, 48h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 48h growth
|
Control 48h
|
| Sample_geo_accession | GSM658315
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 48 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658315/suppl/GSM658315_hyb7088.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658316 | GPL570 |
|
SiHa cells 48h growth + 50 µg/ml cidofovir 6c-SiHa 6c
|
SiHa cells, 48h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 48h growth
treatment: 50 µg/ml cidofovir
|
Test 48h
|
| Sample_geo_accession | GSM658316
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 48 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658316/suppl/GSM658316_hyb7089.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658317 | GPL570 |
|
SiHa cells 72h growth 9c-SiHa 9c
|
SiHa cells, 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
|
Control 72h
|
| Sample_geo_accession | GSM658317
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658317/suppl/GSM658317_hyb7090.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658318 | GPL570 |
|
SiHa cells 72h growth + 50 µg/ml cidofovir 10c-SiHa 10c
|
SiHa cells, 72h growth + 50 µg/ml cidofovir
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
treatment: 50 µg/ml cidofovir
|
Test 72h
|
| Sample_geo_accession | GSM658318
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium + 50 µg/ml cidofovir
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658318/suppl/GSM658318_hyb7091.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658319 | GPL570 |
|
SiHa cells cidofovir resistant (#55) 72h growth 15c-SiHa 15c
|
SiHa cells, cidofovir resistant (#55), 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
phenotype: cidofovir resistant (#55)
|
HPMPC (#55) test 72h
|
| Sample_geo_accession | GSM658319
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES; selected in increasing concentrations of cidofovir, maintained in 25 µg/ml up until #53
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658319/suppl/GSM658319_hyb7092.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
|
GSM658320 | GPL570 |
|
SiHa cells cidofovir resistant (#230) 72h growth 16c-SiHa 16
|
SiHa cells, cidofovir resistant (#230), 72h growth
|
source organ: cervix
source tumor stage: grade II
source disease: squamous cell carcinoma
cell line: SiHa
time: 72h growth
phenotype: cidofovir resistant (#230)
|
HPMPC (#230) test 72h
|
| Sample_geo_accession | GSM658320
| | Sample_status | Public on Jan 31 2013
| | Sample_submission_date | Jan 20 2011
| | Sample_last_update_date | Jan 31 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | ATCC: HTB-35TM
| | Sample_treatment_protocol_ch1 | attached cells (24 h after passaging), grown for 72 h in renewed medium
| | Sample_growth_protocol_ch1 | cultured at 37°C, 5% CO2 in DMEM, supplemented with 10% fetal calf serum , 1% L-glutamine, 1% nonessential amino acids, 1% sodium pyruvate and 1% HEPES; selected in increasing concentrations of cidofovir, maintained in 50 µg/ml up until #228
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | 106 cells were lysed with TRIzol reagent for 3 minutes at RT, 20% chloroform was added, centrifuged for 15 minutes at 4°C at 13.000 g, RNA was further isolated with RNeasy Mini Kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45°C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | Data were normalized using RMA as implemented in the Affy package (version 1.22.0) of Bioconductor.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Joke,,Allemeersch
| | Sample_contact_email | joke.allemeersch@vib.be
| | Sample_contact_phone | +32(0)16 37 31 26
| | Sample_contact_department | Nucleomics Core
| | Sample_contact_institute | Flanders Institute for Biotechnology (VIB)
| | Sample_contact_address | Herestraat 49 Box 816
| | Sample_contact_city | Leuven
| | Sample_contact_zip/postal_code | B-3000
| | Sample_contact_country | Belgium
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658320/suppl/GSM658320_hyb7093.CEL.gz
| | Sample_series_id | GSE26748
| | Sample_data_row_count | 54675
| | |
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