Search results for the GEO ID: GSE17546  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM437415 | GPL570 |
|
G11 immortal clone, biological rep1
|
immortal Huh7 clone after PD >150
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>150
|
Gene expression data from immortal isogenic clones
|
| Sample_geo_accession | GSM437415
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437415/suppl/GSM437415.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437416 | GPL570 |
|
G11 immortal clone, biological rep2
|
immortal Huh7 clone after PD >150
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>150
|
Gene expression data from immortal isogenic clones
|
| Sample_geo_accession | GSM437416
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437416/suppl/GSM437416.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437417 | GPL570 |
|
G11 immortal clone, biological rep3
|
immortal Huh7 clone after PD >150
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>150
|
Gene expression data from immortal isogenic clones
|
| Sample_geo_accession | GSM437417
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437417/suppl/GSM437417.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437418 | GPL570 |
|
G12 senescence clone, biological rep1
|
senescent Huh7 clone with >50% SABG pos.
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>60
|
Gene expression data from senescent isogenic clones
|
| Sample_geo_accession | GSM437418
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437418/suppl/GSM437418.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437419 | GPL570 |
|
G12 senescence clone, biological rep2
|
senescent Huh7 clone with >50% SABG pos.
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>60
|
Gene expression data from senescent isogenic clones
|
| Sample_geo_accession | GSM437419
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437419/suppl/GSM437419.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437420 | GPL570 |
|
G12 senescence clone, biological rep3
|
senescent Huh7 clone with >50% SABG pos.
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>60
|
Gene expression data from senescent isogenic clones
|
| Sample_geo_accession | GSM437420
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437420/suppl/GSM437420.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437424 | GPL570 |
|
C1 immortal clone, biological rep1
|
immortal Huh7 clone after PD >150
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>150
|
Gene expression data from immortal isogenic clones
|
| Sample_geo_accession | GSM437424
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437424/suppl/GSM437424.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437425 | GPL570 |
|
C1 immortal clone, biological rep2
|
immortal Huh7 clone after PD >150
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>150
|
Gene expression data from immortal isogenic clones
|
| Sample_geo_accession | GSM437425
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437425/suppl/GSM437425.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437426 | GPL570 |
|
C1 immortal clone, biological rep3
|
immortal Huh7 clone after PD >150
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>150
|
Gene expression data from immortal isogenic clones
|
| Sample_geo_accession | GSM437426
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437426/suppl/GSM437426.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437427 | GPL570 |
|
C3 senescent clone, biological rep1
|
senescent Huh7 clone with >50% SABG pos.
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>60
|
Gene expression data from senescent isogenic clones
|
| Sample_geo_accession | GSM437427
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437427/suppl/GSM437427.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437428 | GPL570 |
|
C3 senescent clone, biological rep2
|
senescent Huh7 clone with >50% SABG pos.
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>60
|
Gene expression data from senescent isogenic clones
|
| Sample_geo_accession | GSM437428
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437428/suppl/GSM437428.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
|
GSM437429 | GPL570 |
|
C3 senescent clone, biological rep3
|
senescent Huh7 clone with >50% SABG pos.
|
tissue: Liver cancer cell line isogenic clone
genotype: epithelial-like, hepatoma (differenciated)
age: 57
gender: M
age: isogenic clone after PD>60
|
Gene expression data from senescent isogenic clones
|
| Sample_geo_accession | GSM437429
| | Sample_status | Public on May 23 2013
| | Sample_submission_date | Aug 06 2009
| | Sample_last_update_date | May 24 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The cells were washed with 1XPBS three times and, detacched from plate using tyripsine. They were pelletted by centrifuging at 4 degree at 5000 rpm for 5 minutes.
| | Sample_growth_protocol_ch1 | The isogenic clones were plated in 10 cm plates in DMEM medium containing 10% FCS, 1% Penicillin/Streptomycin and 1% non-essential aminoacid, and stored in incubator at 37 C, 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA were extracted using Nucleospin RNA II kit (MN) according to the manufecturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Gene Array Scanner. GeneChip Opreating Software (GCOS, Affymetrix) was used to collect and store the data.
| | Sample_data_processing | The data were analyzed with Robust Multichip Average (RMA) using Affymetrix default analysis settings and global scaling as normalization method. The signal intensity was converted to log2 values using Bioconductor package in R 2.4.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Mehmet,,Ozturk
| | Sample_contact_email | ozturk@fen.bilkent.edu.tr
| | Sample_contact_phone | +90 312 266 45 38
| | Sample_contact_fax | +90 312 266 50 97
| | Sample_contact_department | BilGen Genetics and Biotechnology Research Center
| | Sample_contact_institute | Bilkent University
| | Sample_contact_address | Faculty of Science Building
| | Sample_contact_city | Ankara
| | Sample_contact_zip/postal_code | 06800
| | Sample_contact_country | Turkey
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM437nnn/GSM437429/suppl/GSM437429.CEL.gz
| | Sample_series_id | GSE17546
| | Sample_data_row_count | 54674
| | |
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