Search results for the GEO ID: GSE34022  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM840543 | GPL570 |
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Huh-7 cells control
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Untreated Huh-7 cells
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cell line: Huh-7
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Gene expression data from untreated huh-& cells
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| Sample_geo_accession | GSM840543
| | Sample_status | Public on Nov 30 2011
| | Sample_submission_date | Nov 29 2011
| | Sample_last_update_date | Nov 30 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Following a 24hr incubation period, IFNa terated Huh-7 cells had the existing growth medium replaced with fresh growth medium containing recombinant human IFN-alpha 2b at a final concentration of 100 U/mL. The cells in the ‘Untreated’ flask simply had the growth media exchanged.
| | Sample_growth_protocol_ch1 | Huh-7 cells were maintained at 37°C in a humidified atmosphere containing 5% CO2 and cultured in Dulbecco’s modified Eagle Medium (DMEM) supplemented with 10% (v/v) heat inactivated (56°C, 30 min) Fetal Bovine Serum (FBS), 4.5 g/L Glucose, and 2 mM glutamax.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was extracted from each sample using the RNeasy Mini Kit (Qiagen, Hilden, Germany) according to the manufacturers instructions, and included DNase I treatment on column (15 min at RT).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, labelled cRNA was hybridised to the GeneChip® HG-U133 plus 2.0 probe array during a 16 hr incubation (45°C). Following hybridisation, each probe array underwent automated washing and staining steps.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
| | Sample_data_processing | The image obtained from scanned arrays was acquired using the Affymetrix® GeneChip® Operating Software (GCOS), converting the signal derived from each probe set into a raw intensity value. Probe set values were quantile normalised with the aid of RMAexpress software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Filip,,Bebek
| | Sample_contact_email | filip.bebek@gmail.com
| | Sample_contact_department | School of Biotechnology and Biomolecular Sciences (BABS)
| | Sample_contact_institute | Molecular Microbiology Laboratory
| | Sample_contact_address | Molecular Microbiology Laboratory Rm 262, School of Biotechnology and Biomolecular Sciences (BABS), University of new South Wales
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2052
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM840nnn/GSM840543/suppl/GSM840543_af1c972-20-A-280307.CEL.gz
| | Sample_series_id | GSE34022
| | Sample_data_row_count | 54675
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GSM840544 | GPL570 |
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Huh-7 cells + IFNa
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IFN-alpha treated Huh-7 cells
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cell line: Huh-7
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Gene expression data from IFN-alpha treated (100 U/mL for 6 hours) Huh-7 cells
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| Sample_geo_accession | GSM840544
| | Sample_status | Public on Nov 30 2011
| | Sample_submission_date | Nov 29 2011
| | Sample_last_update_date | Nov 30 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Following a 24hr incubation period, IFNa terated Huh-7 cells had the existing growth medium replaced with fresh growth medium containing recombinant human IFN-alpha 2b at a final concentration of 100 U/mL. The cells in the ‘Untreated’ flask simply had the growth media exchanged.
| | Sample_growth_protocol_ch1 | Huh-7 cells were maintained at 37°C in a humidified atmosphere containing 5% CO2 and cultured in Dulbecco’s modified Eagle Medium (DMEM) supplemented with 10% (v/v) heat inactivated (56°C, 30 min) Fetal Bovine Serum (FBS), 4.5 g/L Glucose, and 2 mM glutamax.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was extracted from each sample using the RNeasy Mini Kit (Qiagen, Hilden, Germany) according to the manufacturers instructions, and included DNase I treatment on column (15 min at RT).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, labelled cRNA was hybridised to the GeneChip® HG-U133 plus 2.0 probe array during a 16 hr incubation (45°C). Following hybridisation, each probe array underwent automated washing and staining steps.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
| | Sample_data_processing | The image obtained from scanned arrays was acquired using the Affymetrix® GeneChip® Operating Software (GCOS), converting the signal derived from each probe set into a raw intensity value. Probe set values were quantile normalised with the aid of RMAexpress software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Filip,,Bebek
| | Sample_contact_email | filip.bebek@gmail.com
| | Sample_contact_department | School of Biotechnology and Biomolecular Sciences (BABS)
| | Sample_contact_institute | Molecular Microbiology Laboratory
| | Sample_contact_address | Molecular Microbiology Laboratory Rm 262, School of Biotechnology and Biomolecular Sciences (BABS), University of new South Wales
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2052
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM840nnn/GSM840544/suppl/GSM840544_af1c972-21-B-280307.CEL.gz
| | Sample_series_id | GSE34022
| | Sample_data_row_count | 54675
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