Search results for the GEO ID: GSE18313  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM457222 | GPL570 |
|
CD57 negative T cell from patient 1
|
PBMCs from patients with WM
|
cell type: CD57 negative T cell
tissue: PBMCs
genotype: yellow white and Oregon R parents
|
Gene expression data from cytotoxic T cell clone
|
| Sample_geo_accession | GSM457222
| | Sample_status | Public on Nov 29 2009
| | Sample_submission_date | Sep 29 2009
| | Sample_last_update_date | Sep 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After stained with antibodies, cells were analyzed by a FACS ARIA II flow cytometry (BD Biosciences) and sorted to CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57-cells.
| | Sample_growth_protocol_ch1 | peripheral blood mononuclear cells (PBMCs) were isolated by Ficoll gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using an RNeasy Micro Kit (Qiagen, Germany) from freshly purified CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57- T cells separately according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared after the two rounds of RNA amplification were conducted by using MessageAmpTM II aRNA Kit and MessageAmpTM II Biotin Enhanced Kit (Ambion, Austin, TX)
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized to the Affymetrix Human Genome U133Plus 2.0 gene chips
| | Sample_scan_protocol | The chips were further processed and scanned according to the manufacturer's protocol
| | Sample_data_processing | CEL files were normalized using RMA, and present/marginal/absent calls were generated using the affy library in R/Bioconductor. We deemed a probeset to be detected if it had at least one Present call. Differential expression due to CD57 pos/neg for non-control probeset that were determined in at least one sample was assessed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jia,,Li
| | Sample_contact_email | li2002jia@hotmail.com
| | Sample_contact_institute | the University of Sydney
| | Sample_contact_address | CIG, N257, Building A15, the University of Sydney
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2006
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM457nnn/GSM457222/suppl/GSM457222.CEL.gz
| | Sample_series_id | GSE18313
| | Sample_data_row_count | 54675
| | |
|
GSM457223 | GPL570 |
|
CD57 positive T cell from patient 1
|
PBMCs from patients with WM
|
cell type: CD57 positive T cell
tissue: PBMCs
genotype: yellow white and Oregon R parents
|
Gene expression data from cytotoxic T cell clone
|
| Sample_geo_accession | GSM457223
| | Sample_status | Public on Nov 29 2009
| | Sample_submission_date | Sep 29 2009
| | Sample_last_update_date | Sep 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After stained with antibodies, cells were analyzed by a FACS ARIA II flow cytometry (BD Biosciences) and sorted to CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57-cells.
| | Sample_growth_protocol_ch1 | peripheral blood mononuclear cells (PBMCs) were isolated by Ficoll gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using an RNeasy Micro Kit (Qiagen, Germany) from freshly purified CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57- T cells separately according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared after the two rounds of RNA amplification were conducted by using MessageAmpTM II aRNA Kit and MessageAmpTM II Biotin Enhanced Kit (Ambion, Austin, TX)
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized to the Affymetrix Human Genome U133Plus 2.0 gene chips
| | Sample_scan_protocol | The chips were further processed and scanned according to the manufacturer's protocol
| | Sample_data_processing | CEL files were normalized using RMA, and present/marginal/absent calls were generated using the affy library in R/Bioconductor. We deemed a probeset to be detected if it had at least one Present call. Differential expression due to CD57 pos/neg for non-control probeset that were determined in at least one sample was assessed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jia,,Li
| | Sample_contact_email | li2002jia@hotmail.com
| | Sample_contact_institute | the University of Sydney
| | Sample_contact_address | CIG, N257, Building A15, the University of Sydney
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2006
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM457nnn/GSM457223/suppl/GSM457223.CEL.gz
| | Sample_series_id | GSE18313
| | Sample_data_row_count | 54675
| | |
|
GSM457224 | GPL570 |
|
CD57 negative T cell from patient 2
|
PBMCs from patients with WM
|
cell type: CD57 negative T cell
tissue: PBMCs
genotype: yellow white and Oregon R parents
|
Gene expression data from cytotoxic T cell clone
|
| Sample_geo_accession | GSM457224
| | Sample_status | Public on Nov 29 2009
| | Sample_submission_date | Sep 29 2009
| | Sample_last_update_date | Sep 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After stained with antibodies, cells were analyzed by a FACS ARIA II flow cytometry (BD Biosciences) and sorted to CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57-cells.
| | Sample_growth_protocol_ch1 | peripheral blood mononuclear cells (PBMCs) were isolated by Ficoll gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using an RNeasy Micro Kit (Qiagen, Germany) from freshly purified CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57- T cells separately according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared after the two rounds of RNA amplification were conducted by using MessageAmpTM II aRNA Kit and MessageAmpTM II Biotin Enhanced Kit (Ambion, Austin, TX)
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized to the Affymetrix Human Genome U133Plus 2.0 gene chips
| | Sample_scan_protocol | The chips were further processed and scanned according to the manufacturer's protocol
| | Sample_data_processing | CEL files were normalized using RMA, and present/marginal/absent calls were generated using the affy library in R/Bioconductor. We deemed a probeset to be detected if it had at least one Present call. Differential expression due to CD57 pos/neg for non-control probeset that were determined in at least one sample was assessed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jia,,Li
| | Sample_contact_email | li2002jia@hotmail.com
| | Sample_contact_institute | the University of Sydney
| | Sample_contact_address | CIG, N257, Building A15, the University of Sydney
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2006
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM457nnn/GSM457224/suppl/GSM457224.CEL.gz
| | Sample_series_id | GSE18313
| | Sample_data_row_count | 54675
| | |
|
GSM457225 | GPL570 |
|
CD57 positive T cell from patient 2
|
PBMCs from patients with WM
|
cell type: CD57 positive T cell
tissue: PBMCs
genotype: yellow white and Oregon R parents
|
Gene expression data from cytotoxic T cell clone
|
| Sample_geo_accession | GSM457225
| | Sample_status | Public on Nov 29 2009
| | Sample_submission_date | Sep 29 2009
| | Sample_last_update_date | Sep 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After stained with antibodies, cells were analyzed by a FACS ARIA II flow cytometry (BD Biosciences) and sorted to CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57-cells.
| | Sample_growth_protocol_ch1 | peripheral blood mononuclear cells (PBMCs) were isolated by Ficoll gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using an RNeasy Micro Kit (Qiagen, Germany) from freshly purified CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57- T cells separately according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared after the two rounds of RNA amplification were conducted by using MessageAmpTM II aRNA Kit and MessageAmpTM II Biotin Enhanced Kit (Ambion, Austin, TX)
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized to the Affymetrix Human Genome U133Plus 2.0 gene chips
| | Sample_scan_protocol | The chips were further processed and scanned according to the manufacturer's protocol
| | Sample_data_processing | CEL files were normalized using RMA, and present/marginal/absent calls were generated using the affy library in R/Bioconductor. We deemed a probeset to be detected if it had at least one Present call. Differential expression due to CD57 pos/neg for non-control probeset that were determined in at least one sample was assessed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jia,,Li
| | Sample_contact_email | li2002jia@hotmail.com
| | Sample_contact_institute | the University of Sydney
| | Sample_contact_address | CIG, N257, Building A15, the University of Sydney
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2006
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM457nnn/GSM457225/suppl/GSM457225.CEL.gz
| | Sample_series_id | GSE18313
| | Sample_data_row_count | 54675
| | |
|
GSM457226 | GPL570 |
|
CD57 negative T cell from patient 3
|
PBMCs from patients with WM
|
cell type: CD57 negative T cell
tissue: PBMCs
genotype: yellow white and Oregon R parents
|
Gene expression data from cytotoxic T cell clone
|
| Sample_geo_accession | GSM457226
| | Sample_status | Public on Nov 29 2009
| | Sample_submission_date | Sep 29 2009
| | Sample_last_update_date | Sep 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After stained with antibodies, cells were analyzed by a FACS ARIA II flow cytometry (BD Biosciences) and sorted to CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57-cells.
| | Sample_growth_protocol_ch1 | peripheral blood mononuclear cells (PBMCs) were isolated by Ficoll gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using an RNeasy Micro Kit (Qiagen, Germany) from freshly purified CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57- T cells separately according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared after the two rounds of RNA amplification were conducted by using MessageAmpTM II aRNA Kit and MessageAmpTM II Biotin Enhanced Kit (Ambion, Austin, TX)
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized to the Affymetrix Human Genome U133Plus 2.0 gene chips
| | Sample_scan_protocol | The chips were further processed and scanned according to the manufacturer's protocol
| | Sample_data_processing | CEL files were normalized using RMA, and present/marginal/absent calls were generated using the affy library in R/Bioconductor. We deemed a probeset to be detected if it had at least one Present call. Differential expression due to CD57 pos/neg for non-control probeset that were determined in at least one sample was assessed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jia,,Li
| | Sample_contact_email | li2002jia@hotmail.com
| | Sample_contact_institute | the University of Sydney
| | Sample_contact_address | CIG, N257, Building A15, the University of Sydney
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2006
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM457nnn/GSM457226/suppl/GSM457226.CEL.gz
| | Sample_series_id | GSE18313
| | Sample_data_row_count | 54675
| | |
|
GSM457227 | GPL570 |
|
CD57 positive T cell from patient 3
|
PBMCs from patients with WM
|
cell type: CD57 positive T cell
tissue: PBMCs
genotype: yellow white and Oregon R parents
|
Gene expression data from cytotoxic T cell clone
|
| Sample_geo_accession | GSM457227
| | Sample_status | Public on Nov 29 2009
| | Sample_submission_date | Sep 29 2009
| | Sample_last_update_date | Sep 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After stained with antibodies, cells were analyzed by a FACS ARIA II flow cytometry (BD Biosciences) and sorted to CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57-cells.
| | Sample_growth_protocol_ch1 | peripheral blood mononuclear cells (PBMCs) were isolated by Ficoll gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using an RNeasy Micro Kit (Qiagen, Germany) from freshly purified CD3+CD4-TCRVβ+CD57+ and CD3+CD4-TCRVβ+CD57- T cells separately according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared after the two rounds of RNA amplification were conducted by using MessageAmpTM II aRNA Kit and MessageAmpTM II Biotin Enhanced Kit (Ambion, Austin, TX)
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized to the Affymetrix Human Genome U133Plus 2.0 gene chips
| | Sample_scan_protocol | The chips were further processed and scanned according to the manufacturer's protocol
| | Sample_data_processing | CEL files were normalized using RMA, and present/marginal/absent calls were generated using the affy library in R/Bioconductor. We deemed a probeset to be detected if it had at least one Present call. Differential expression due to CD57 pos/neg for non-control probeset that were determined in at least one sample was assessed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jia,,Li
| | Sample_contact_email | li2002jia@hotmail.com
| | Sample_contact_institute | the University of Sydney
| | Sample_contact_address | CIG, N257, Building A15, the University of Sydney
| | Sample_contact_city | Sydney
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2006
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM457nnn/GSM457227/suppl/GSM457227.CEL.gz
| | Sample_series_id | GSE18313
| | Sample_data_row_count | 54675
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