Search results for the GEO ID: GSE25087  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM616115 | GPL570 |
|
Fetal Naïve CD4+ T cells 1
|
Sort Purified Fetal CD3+CD4+CD45RA+CCR7+CD27+ Naïve T cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD45RA+CCR7+CD27+
|
Gene Expression
|
| Sample_geo_accession | GSM616115
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616115/suppl/GSM616115.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616116 | GPL570 |
|
Fetal Naïve CD4+ T cells 2
|
Sort Purified Fetal CD3+CD4+CD45RA+CCR7+CD27+ Naïve T cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD45RA+CCR7+CD27+
|
Gene Expression
|
| Sample_geo_accession | GSM616116
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616116/suppl/GSM616116.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616117 | GPL570 |
|
Fetal Naïve CD4+ T cells 3
|
Sort Purified Fetal CD3+CD4+CD45RA+CCR7+CD27+ Naïve T cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD45RA+CCR7+CD27+
|
Gene Expression
|
| Sample_geo_accession | GSM616117
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616117/suppl/GSM616117.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616118 | GPL570 |
|
Fetal CD4+CD25+ Treg 1
|
Sort Purified Fetal CD3+CD4+CD25bright Treg cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD25bright
|
Gene Expression
|
| Sample_geo_accession | GSM616118
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616118/suppl/GSM616118.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616119 | GPL570 |
|
Fetal CD4+CD25+ Treg 2
|
Sort Purified Fetal CD3+CD4+CD25bright Treg cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD25bright
|
Gene Expression
|
| Sample_geo_accession | GSM616119
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616119/suppl/GSM616119.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616120 | GPL570 |
|
Fetal CD4+CD25+ Treg 3
|
Sort Purified Fetal CD3+CD4+CD25bright Treg cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD25bright
|
Gene Expression
|
| Sample_geo_accession | GSM616120
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616120/suppl/GSM616120.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616121 | GPL570 |
|
Adult Naïve CD4+ T cells 1
|
Sort Purified Adult CD3+CD4+CD45RA+CCR7+CD27+ Naïve T cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD45RA+CCR7+CD27+
|
Gene Expression
|
| Sample_geo_accession | GSM616121
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616121/suppl/GSM616121.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616122 | GPL570 |
|
Adult Naïve CD4+ T cells 2
|
Sort Purified Adult CD3+CD4+CD45RA+CCR7+CD27+ Naïve T cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD45RA+CCR7+CD27+
|
Gene Expression
|
| Sample_geo_accession | GSM616122
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616122/suppl/GSM616122.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616123 | GPL570 |
|
Adult Naïve CD4+ T cells 3
|
Sort Purified Adult CD3+CD4+CD45RA+CCR7+CD27+ Naïve T cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD45RA+CCR7+CD27+
|
Gene Expression
|
| Sample_geo_accession | GSM616123
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616123/suppl/GSM616123.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616124 | GPL570 |
|
Adult CD4+CD25+ Treg 1
|
Sort Purified Adult CD3+CD4+CD25bright Treg cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD25bright
|
Gene Expression
|
| Sample_geo_accession | GSM616124
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616124/suppl/GSM616124.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
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GSM616125 | GPL570 |
|
Adult CD4+CD25+ Treg 2
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Sort Purified Adult CD3+CD4+CD25bright Treg cells
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cell type: Sort Purified T cells
phenotype: CD3+CD4+CD25bright
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Gene Expression
|
| Sample_geo_accession | GSM616125
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616125/suppl/GSM616125.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
| | |
|
GSM616126 | GPL570 |
|
Adult CD4+CD25+ Treg 3
|
Sort Purified Adult CD3+CD4+CD25bright Treg cells
|
cell type: Sort Purified T cells
phenotype: CD3+CD4+CD25bright
|
Gene Expression
|
| Sample_geo_accession | GSM616126
| | Sample_status | Public on Dec 17 2010
| | Sample_submission_date | Nov 02 2010
| | Sample_last_update_date | Dec 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After isolation total cells were cultured overnight (12 hours) in low-serum media (RPMI with 2% FBS) to attempt to normalize differences associated with tissue of origin (blood vs lymph node)
| | Sample_growth_protocol_ch1 | Cells were isolated from fetal mesenteric lymph nodes (mechanical dispersion) and adult peripheral blood (Ficoll-Hypaque)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately after sorting cell pellets were lysed in RNA lysis buffer (Stratagene) and RNA was obtained using the Absolutely RNA microprep kit (Stratagene) in accordance with manufacturer’s protocol
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | RNA was converted to cDNA and amplified (NuGEN WT-Ovation kit) and then fragmented (WT-Ovation kit) and labeled with biotin (FL-Ovation cDNA biotin module, NuGEN)
| | Sample_hyb_protocol | Arrays were hybridized using Affymetrix GeneChip Fluidics Station 450 according to manufacturer's protocol
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix Model 3000 scanner
| | Sample_data_processing | Data were analyzed using the Bioconductor package affyPLM. Preprocessing followed the following procedures: (1) background correction; (2) normalization using the quantile method; (3) summarization of probe set values using the RMA (Robust Multi-Array Average) method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,E.,Mold
| | Sample_contact_laboratory | Joseph M. McCune lab
| | Sample_contact_department | Division of Experimental Medicine
| | Sample_contact_institute | University of California San Francisco
| | Sample_contact_address | UCSF Box 1234, SFGH Bldg 3
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-1234
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM616nnn/GSM616126/suppl/GSM616126.CEL.gz
| | Sample_series_id | GSE25087
| | Sample_series_id | GSE25119
| | Sample_data_row_count | 54613
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