Search results for the GEO ID: GSE49506  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1200171 | GPL570 |
|
wt-1
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KSHV_vIRF4-BCBL-1, No treatment of Doxycyline, rep1
|
cell line: BCBL-1 (PEL derived cell line)
phenotype: vIRF4 not expressed
|
KSHV infected PEL
|
| Sample_geo_accession | GSM1200171
| | Sample_status | Public on Aug 03 2013
| | Sample_submission_date | Aug 02 2013
| | Sample_last_update_date | Aug 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | In order to induce vIRF4 gene expression, we treated 1mg/ml of doxycycline into TREx/BCBL-1 vIRF4 cell lines
| | Sample_growth_protocol_ch1 | TREx/BCBL-1 vIRF4 cell lines were cultured with RPMI media+ 10% FBS+ P/S +100mg/ml
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol (Sigma) extraction of total RNA was performed according to the manufacturer's instructions.
| | 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, 10 ug of cRNA were hybridized for 16 hr at 45C on Affimatrix GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | Genechip was scanned using GeneChip Scanner 300
| | Sample_data_processing | The data was RMA normalized by GeneSpring GX 10.0.2 software. Comparisons are made with a fold change of 2.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jae U,,Jung
| | Sample_contact_email | jae.jung@keck.usc.edu
| | Sample_contact_phone | 323-442-7859
| | Sample_contact_laboratory | Harlyne J. Norris Cancer Research Tower, Rm5517
| | Sample_contact_department | Department of Molecular Microbiology and Immunology
| | Sample_contact_institute | University of Southern California, Keck School of Medicine
| | Sample_contact_address | 1450 Biggy Street
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90033
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1200nnn/GSM1200171/suppl/GSM1200171_156733-156729.CEL.gz
| | Sample_series_id | GSE49506
| | Sample_data_row_count | 54675
| | |
|
GSM1200172 | GPL570 |
|
wt-2
|
KSHV_vIRF4-BCBL-1, No treatment of Doxycyline, rep2
|
cell line: BCBL-1 (PEL derived cell line)
phenotype: vIRF4 not expressed
|
KSHV infected PEL
|
| Sample_geo_accession | GSM1200172
| | Sample_status | Public on Aug 03 2013
| | Sample_submission_date | Aug 02 2013
| | Sample_last_update_date | Aug 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | In order to induce vIRF4 gene expression, we treated 1mg/ml of doxycycline into TREx/BCBL-1 vIRF4 cell lines
| | Sample_growth_protocol_ch1 | TREx/BCBL-1 vIRF4 cell lines were cultured with RPMI media+ 10% FBS+ P/S +100mg/ml
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol (Sigma) extraction of total RNA was performed according to the manufacturer's instructions.
| | 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, 10 ug of cRNA were hybridized for 16 hr at 45C on Affimatrix GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | Genechip was scanned using GeneChip Scanner 300
| | Sample_data_processing | The data was RMA normalized by GeneSpring GX 10.0.2 software. Comparisons are made with a fold change of 2.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jae U,,Jung
| | Sample_contact_email | jae.jung@keck.usc.edu
| | Sample_contact_phone | 323-442-7859
| | Sample_contact_laboratory | Harlyne J. Norris Cancer Research Tower, Rm5517
| | Sample_contact_department | Department of Molecular Microbiology and Immunology
| | Sample_contact_institute | University of Southern California, Keck School of Medicine
| | Sample_contact_address | 1450 Biggy Street
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90033
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1200nnn/GSM1200172/suppl/GSM1200172_156734-156730.CEL.gz
| | Sample_series_id | GSE49506
| | Sample_data_row_count | 54675
| | |
|
GSM1200173 | GPL570 |
|
wt+1
|
KSHV_vIRF4-BCBL-1, 24 h treatment of Doxycyline, rep1
|
cell line: BCBL-1 (PEL derived cell line)
phenotype: vIRF4 overexpression
|
KSHV infected PEL
|
| Sample_geo_accession | GSM1200173
| | Sample_status | Public on Aug 03 2013
| | Sample_submission_date | Aug 02 2013
| | Sample_last_update_date | Aug 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | In order to induce vIRF4 gene expression, we treated 1mg/ml of doxycycline into TREx/BCBL-1 vIRF4 cell lines
| | Sample_growth_protocol_ch1 | TREx/BCBL-1 vIRF4 cell lines were cultured with RPMI media+ 10% FBS+ P/S +100mg/ml
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol (Sigma) extraction of total RNA was performed according to the manufacturer's instructions.
| | 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, 10 ug of cRNA were hybridized for 16 hr at 45C on Affimatrix GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | Genechip was scanned using GeneChip Scanner 300
| | Sample_data_processing | The data was RMA normalized by GeneSpring GX 10.0.2 software. Comparisons are made with a fold change of 2.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jae U,,Jung
| | Sample_contact_email | jae.jung@keck.usc.edu
| | Sample_contact_phone | 323-442-7859
| | Sample_contact_laboratory | Harlyne J. Norris Cancer Research Tower, Rm5517
| | Sample_contact_department | Department of Molecular Microbiology and Immunology
| | Sample_contact_institute | University of Southern California, Keck School of Medicine
| | Sample_contact_address | 1450 Biggy Street
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90033
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1200nnn/GSM1200173/suppl/GSM1200173_156735-156731.CEL.gz
| | Sample_series_id | GSE49506
| | Sample_data_row_count | 54675
| | |
|
GSM1200174 | GPL570 |
|
wt+2
|
KSHV_vIRF4-BCBL-1, 24 h treatment of Doxycyline, rep2
|
cell line: BCBL-1 (PEL derived cell line)
phenotype: vIRF4 overexpression
|
KSHV infected PEL
|
| Sample_geo_accession | GSM1200174
| | Sample_status | Public on Aug 03 2013
| | Sample_submission_date | Aug 02 2013
| | Sample_last_update_date | Aug 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | In order to induce vIRF4 gene expression, we treated 1mg/ml of doxycycline into TREx/BCBL-1 vIRF4 cell lines
| | Sample_growth_protocol_ch1 | TREx/BCBL-1 vIRF4 cell lines were cultured with RPMI media+ 10% FBS+ P/S +100mg/ml
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol (Sigma) extraction of total RNA was performed according to the manufacturer's instructions.
| | 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, 10 ug of cRNA were hybridized for 16 hr at 45C on Affimatrix GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | Genechip was scanned using GeneChip Scanner 300
| | Sample_data_processing | The data was RMA normalized by GeneSpring GX 10.0.2 software. Comparisons are made with a fold change of 2.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jae U,,Jung
| | Sample_contact_email | jae.jung@keck.usc.edu
| | Sample_contact_phone | 323-442-7859
| | Sample_contact_laboratory | Harlyne J. Norris Cancer Research Tower, Rm5517
| | Sample_contact_department | Department of Molecular Microbiology and Immunology
| | Sample_contact_institute | University of Southern California, Keck School of Medicine
| | Sample_contact_address | 1450 Biggy Street
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90033
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1200nnn/GSM1200174/suppl/GSM1200174_156736-156732.CEL.gz
| | Sample_series_id | GSE49506
| | Sample_data_row_count | 54675
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