Search results for the GEO ID: GSE36766 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM900560 | GPL570 |
|
Memory CD4 NS at 24h, biological rep1
|
purified CD45RA-CD4+ T cells from a healthy donor (24h)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: untreated
|
Gene expression data from memory CD4+ T cells from healthy donor blood at 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900560
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900560/suppl/GSM900560_7_RO_K_SNT_1_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900561 | GPL570 |
|
Memory CD4 NS at 24h, biological rep2
|
purified CD45RA-CD4+ T cells from a healthy donor (24h)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: untreated
|
Gene expression data from memory CD4+ T cells from healthy donor blood at 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900561
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900561/suppl/GSM900561_10_RO_K_SNT_7_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900562 | GPL570 |
|
Memory CD4 NS at 24h, biological rep3
|
purified CD45RA-CD4+ T cells from a healthy donor (24h)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: untreated
|
Gene expression data from memory CD4+ T cells from healthy donor blood at 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900562
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900562/suppl/GSM900562_13_RO_K_SNT_13_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900563 | GPL570 |
|
Memory CD4 NS + SN034 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h treatment with SN from breast cancer patient 034)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h treatment with SN from breast cancer patient 034
|
Gene expression data from memory CD4+ T cells from healthy donor blood treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900563
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900563/suppl/GSM900563_8_RO_K_SNT_3_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900564 | GPL570 |
|
Memory CD4 NS + SN043 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h treatment with SN from breast cancer patient 043)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h treatment with SN from breast cancer patient 043
|
Gene expression data from memory CD4+ T cells from healthy donor blood treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900564
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900564/suppl/GSM900564_9_RO_K_SNT_5_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900565 | GPL570 |
|
Memory CD4 NS + SN019 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h treatment with SN from breast cancer patient 019)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h treatment with SN from breast cancer patient 019
|
Gene expression data from memory CD4+ T cells from healthy donor blood treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900565
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900565/suppl/GSM900565_11_RO_K_SNT_9_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900566 | GPL570 |
|
Memory CD4 NS + SN027 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h treatment with SN from breast cancer patient 027)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h treatment with SN from breast cancer patient 027
|
Gene expression data from memory CD4+ T cells from healthy donor blood treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900566
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900566/suppl/GSM900566_12_RO_K_SNT_10_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900567 | GPL570 |
|
Memory CD4 S at 24h, biological rep1
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulation
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900567
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900567/suppl/GSM900567_14_RO_K_SNT_14_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900568 | GPL570 |
|
Memory CD4 S at 24h, biological rep2
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulation
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900568
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900568/suppl/GSM900568_17_RO_K_SNT_20_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900569 | GPL570 |
|
Memory CD4 S at 24h, biological rep3
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulation
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900569
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900569/suppl/GSM900569_20_RO_K_SNT_26_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900570 | GPL570 |
|
Memory CD4 S + SN034 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation & treatment with SN from breast cancer patient 034)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulatin (anti-CD3 + anti-CD28) & treatment with SN from breast cancer patient 034
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated and treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900570
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900570/suppl/GSM900570_15_RO_K_SNT_16_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900571 | GPL570 |
|
Memory CD4 S + SN043 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation & treatment with SN from breast cancer patient 043)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulatin (anti-CD3 + anti-CD28) & treatment with SN from breast cancer patient 043
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated and treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900571
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900571/suppl/GSM900571_16_RO_K_SNT_18_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900572 | GPL570 |
|
Memory CD4 S + SN019 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation & treatment with SN from breast cancer patient 019)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulatin (anti-CD3 + anti-CD28) & treatment with SN from breast cancer patient 019
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated and treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900572
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900572/suppl/GSM900572_18_RO_K_SNT_22_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
GSM900573 | GPL570 |
|
Memory CD4 S + SN027 at 24h
|
purified CD45RA-CD4+ T cells from a healthy donor (+ 24h stimulation & treatment with SN from breast cancer patient 027)
|
source tissue: peripheral blood
cell type: purified CD45RA-CD4+ T cells
disease state: healthy
treatment: + 24h stimulatin (anti-CD3 + anti-CD28) & treatment with SN from breast cancer patient 027
|
Gene expression data from memory CD4+ T cells from healthy donor blood stimulated and treated with SN for 24h
Memory CD4+ T cells were negatively purified from a healthy donor (D6) blood using Memory CD4+ T Cell Isolation Kit (Myltenyi Biotec).
|
Sample_geo_accession | GSM900573
| Sample_status | Public on Jun 17 2013
| Sample_submission_date | Mar 23 2012
| Sample_last_update_date | Jun 17 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells (2x106 cells/ml) were incubated in X-VIVO 20 (Lonza) overnight following isolation. Cell viability was controlled the following day by flow cytometry (>95%) and then an equal volume of tumor SN (undiluted) or X-VIVO was added ± anti-CD3 (#317304, clone OKT3; Biolegend) and anti-CD28 (#555725, clone CD28.2; BD Pharmingen), each at 1µg/ml.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol 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 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner.
| Sample_data_processing | The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
| Sample_platform_id | GPL570
| Sample_contact_name | Chunyan,,GU
| Sample_contact_email | chunyan.gu@bordet.be
| Sample_contact_phone | +32(0)25413711
| Sample_contact_laboratory | Molecular Immunology
| Sample_contact_department | Medecine (Jules Bordet Institute)
| Sample_contact_institute | Free University of Brussels
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Brussels
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM900nnn/GSM900573/suppl/GSM900573_19_RO_K_SNT_23_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE36766
| Sample_series_id | GSE36769
| Sample_data_row_count | 54675
| |
|
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