Search results for the GEO ID: GSE37715  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM925906 | GPL570 |
|
Without HCV infection or IFN treatment_Mouse#1
|
human hepatocytes without HCV infection or IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: none
group: A
|
GroupA#1
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925906
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925906/suppl/GSM925906_GroupA_1.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925907 | GPL570 |
|
Without HCV infection or IFN treatment_Mouse#2
|
human hepatocytes without HCV infection or IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: none
group: A
|
GroupA#2
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925907
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925907/suppl/GSM925907_GroupA_2.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925908 | GPL570 |
|
Without HCV infection or IFN treatment_Mouse#3
|
human hepatocytes without HCV infection or IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: none
group: A
|
GroupA#3
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925908
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925908/suppl/GSM925908_GroupA_3.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925909 | GPL570 |
|
Without HCV infection or IFN treatment_Mouse#4
|
human hepatocytes without HCV infection or IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: none
group: A
|
GroupA#4
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925909
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925909/suppl/GSM925909_GroupA_4.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925910 | GPL570 |
|
With IFN treatment_Mouse#1
|
human hepatocytes with IFN treatment only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: interferon-alpha (IFN-α)
group: B
|
GroupB#1
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925910
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925910/suppl/GSM925910_GroupB_1.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925911 | GPL570 |
|
With IFN treatment_Mouse#2
|
human hepatocytes with IFN treatment only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: interferon-alpha (IFN-α)
group: B
|
GroupB#2
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925911
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925911/suppl/GSM925911_GroupB_2.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925912 | GPL570 |
|
With IFN treatment_Mouse#3
|
human hepatocytes with IFN treatment only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: interferon-alpha (IFN-α)
group: B
|
GroupB#3
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925912
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925912/suppl/GSM925912_GroupB_3.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925913 | GPL570 |
|
With IFN treatment_Mouse#4
|
human hepatocytes with IFN treatment only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV)
group: B
|
GroupB#4
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925913
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925913/suppl/GSM925913_GroupB_4.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925914 | GPL570 |
|
With HCV infection_Mouse#1
|
human hepatocytes with HCV infection only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV)
group: C
|
GroupC#1
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925914
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925914/suppl/GSM925914_GroupC_1.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925915 | GPL570 |
|
With HCV infection_Mouse#2
|
human hepatocytes with HCV infection only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV)
group: C
|
GroupC#2
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925915
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925915/suppl/GSM925915_GroupC_2.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925916 | GPL570 |
|
With HCV infection_Mouse#3
|
human hepatocytes with HCV infection only
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV)
group: C
|
GroupC#3
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925916
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925916/suppl/GSM925916_GroupC_3.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925917 | GPL570 |
|
With both HCV infection and IFN treatment_Mouse#1
|
human hepatocytes with both HCV infection and IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV) and interferon-alpha (IFN-α)
group: D
|
GroupD#1
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925917
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925917/suppl/GSM925917_GroupD_1.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925918 | GPL570 |
|
With both HCV infection and IFN treatment_Mouse#2
|
human hepatocytes with both HCV infection and IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV) and interferon-alpha (IFN-α)
group: D
|
GroupD#2
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925918
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925918/suppl/GSM925918_GroupD_2.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925919 | GPL570 |
|
With both HCV infection and IFN treatment_Mouse#3
|
human hepatocytes with both HCV infection and IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV) and interferon-alpha (IFN-α)
group: D
|
GroupD#3
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925919
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925919/suppl/GSM925919_GroupD_3.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
GSM925920 | GPL570 |
|
With both HCV infection and IFN treatment_Mouse#4
|
human hepatocytes with both HCV infection and IFN treatment
|
cell type: human hepatocytes from human hepatocyte chimeric mouse liver
treatment: hepatitis C virus (HCV) and interferon-alpha (IFN-α)
group: D
|
GroupD#4
Gene expression data from human hepatocytes.
|
| Sample_geo_accession | GSM925920
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | May 02 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | A total of 15 human hepatocyte chimeric mice were prepared and divided into four experimental groups. Mice in group A were neither infected with hepatitis C virus (HCV) nor treated with interferon-alpha (IFN-α). Mice in group B were administered 7000 IU/g body of IFN-α 6 h before sacrifice but were not infected with HCV. The mice in groups C and D were both inoculated via the mouse tail vein with human serum containing HCV genotype 1b particles. At 8 weeks after inoculation, the mice in group D were administered IFN-α 6 h before sacrifice, but the mice in group C were not treated with IFN-α. The human hepatocytes in the mouse livers were collected after sacrifice and subjected to microarray analysis.
| | Sample_growth_protocol_ch1 | HCV genotype 1b-containing human serum was injected into human hepatocyte chimeric mice, and human hepatocytes in the mice livers were collected 8 weeks after inoculation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Qiagen RNeasy Mini Kit according to the manufacturer's protocol (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 300 ng of total RNA underwent first-strand and second-strand cDNA synthesis. Complementary RNA was generated and used to produce sense-strand cDNA, which was fragmented and end-labeled with biotin.
| | Sample_hyb_protocol | Biotin-labeled cDNA was hybridized to Affymetrix GeneChip Human Gene U133 Plus 2.0 Arrays for 16 hours at 45 °C using the GeneChip Hybridization Oven 640 (Affymetrix).
| | Sample_scan_protocol | Images were acquired using the Affymetrix Scanner 3000 (Affymetrix).
| | Sample_data_processing | Fluorescence intensities captured by the Affymetrix GeneChip Scanner were converted to numerical values and were standardized using quantile normalization with the Robust Multiarray Analysis (RMA) algorithm (Affymetrix GeneChip Operating Software).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Masataka,,Tsuge
| | Sample_contact_institute | Hiroshima university
| | Sample_contact_address | 1-2-3, Kasumi, Minami-ku
| | Sample_contact_city | Hiroshima
| | Sample_contact_zip/postal_code | 734-8551
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM925nnn/GSM925920/suppl/GSM925920_GroupD_4.CEL.gz
| | Sample_series_id | GSE37715
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
Enter the group name here: |
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