Search results for the GEO ID: GSE42867  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1052549 | GPL570 |
|
Awia_1g6 rep1 (clone w)
|
EBV negative clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Negative
ebv latency: NA
|
gene expression data from Awia_1g6 rep1 (clone w)
|
| Sample_geo_accession | GSM1052549
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052549/suppl/GSM1052549_I_AWIA_Clone_1g6_RNA_190705.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052550 | GPL570 |
|
Awia_1g6 rep2 (clone w')
|
EBV negative clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Negative
ebv latency: NA
|
gene expression data from Awia_1g6 rep2 (clone w')
|
| Sample_geo_accession | GSM1052550
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052550/suppl/GSM1052550_I_AWIA_Clone1g6_RNA_170805.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052551 | GPL570 |
|
Awia_5e10 rep1 (clone z)
|
EBV negative clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Negative
ebv latency: NA
|
gene expression data from Awia_5e10 rep1 (clone z)
|
| Sample_geo_accession | GSM1052551
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052551/suppl/GSM1052551_I_AWIA_Clone_5e10_RNA_190705.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052552 | GPL570 |
|
Awia_5e10 rep2 (clone z')
|
EBV negative clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Negative
ebv latency: NA
|
gene expression data from Awia_5e10 rep2 (clone z')
|
| Sample_geo_accession | GSM1052552
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052552/suppl/GSM1052552_I_AWIA_Clone5e10_RNA_170805.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052553 | GPL570 |
|
Awia_9 (clone a)
|
Latency I clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Latency I
|
gene expression data from Awia_9 (clone a)
|
| Sample_geo_accession | GSM1052553
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052553/suppl/GSM1052553_II_AWIA_Clone9_RNA_170805.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052554 | GPL570 |
|
Awia_15 (clone b)
|
Latency I clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Latency I
|
gene expression data from Awia_15 (clone b)
|
| Sample_geo_accession | GSM1052554
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052554/suppl/GSM1052554_II_AWIA_Clone15_RNA_170805.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052555 | GPL570 |
|
Awia_33b (clone c)
|
Latency I clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Latency I
|
gene expression data from Awia_33b (clone c)
|
| Sample_geo_accession | GSM1052555
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052555/suppl/GSM1052555_II_AWIA_Clone33b_RNA_170805.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052556 | GPL570 |
|
Awia_20 (clone d)
|
Latency I clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Latency I
|
gene expression data from Awia_20 (clone d)
|
| Sample_geo_accession | GSM1052556
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052556/suppl/GSM1052556_II_AWIA_Clone20_RNA_170805.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052557 | GPL570 |
|
Awia_1c9 (clone m)
|
Wp restricted clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Wp restricted
|
gene expression data from Awia_1c9 (clone m)
|
| Sample_geo_accession | GSM1052557
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052557/suppl/GSM1052557_III_AWIA_Clone_1c9_RNA_190705.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052558 | GPL570 |
|
Awia_1b12 (clone n)
|
Wp restricted clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Wp restricted
|
gene expression data from Awia_1b12 (clone n)
|
| Sample_geo_accession | GSM1052558
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052558/suppl/GSM1052558_III_AWIA_Clone_1b12_RNA_190705.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052559 | GPL570 |
|
Awia_1e9 (clone p)
|
Wp restricted clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Wp restricted
|
gene expression data from Awia_1e9 (clone p)
|
| Sample_geo_accession | GSM1052559
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052559/suppl/GSM1052559_III_AWIA_Clone_1e9_RNA_190705.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
GSM1052560 | GPL570 |
|
Awia_1h11 (clone q)
|
Wp restricted clone
|
cell line: Awia-BL
cell type: Burkitt lymphoma
ebv status: Positive
ebv latency: Wp restricted
|
gene expression data from Awia_1h11 (clone q)
|
| Sample_geo_accession | GSM1052560
| | Sample_status | Public on Jan 22 2013
| | Sample_submission_date | Dec 12 2012
| | Sample_last_update_date | Jan 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | None
| | Sample_growth_protocol_ch1 | Cells were maintained in exponential growth in RPMI1640 medium containing 10% foetal calf serum and 2mM glutamine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using Trizol according to the manufacturer's instructions. RNA quality was confirmed with an Agilent 2100 BioAnalyser and all samples had RIN values >9.8.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10ug total RNA
| | Sample_hyb_protocol | Affymetrix Standard protocol
| | Sample_scan_protocol | Arrays were scanned with a GeneChip3000 7G scanner.
| | Sample_data_processing | Probe level quantile normalisation and robust multi-array analysis on the raw CEL files were performed using the Affymetrix package of the Bioconductor project. Differentially expressed probe sets were identified using SAM with the fold-change threshold set to 1.5 and the FDR (the q-value) below 1%.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Wenbin,,Wei
| | Sample_contact_email | w.wei@bham.ac.uk
| | Sample_contact_phone | +44-121-4143293
| | Sample_contact_laboratory | Bioinformatics
| | Sample_contact_department | School of Cancer Sciences
| | Sample_contact_institute | University of Birmingham
| | Sample_contact_address | Vincent Drive
| | Sample_contact_city | Edgbaston
| | Sample_contact_state | West Midlands
| | Sample_contact_zip/postal_code | B15 2TT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1052nnn/GSM1052560/suppl/GSM1052560_III_AWIA_Clone_1h11_RNA_190705.CEL.gz
| | Sample_series_id | GSE42867
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
