Search results for the GEO ID: GSE16697  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM418234 | GPL1261 |
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Naïve
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mouse naive CD4 T cells
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strain: C57BL6/J Mice
cell type: CD4 T cells
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Gene expression data from naïve CD4+ T Cells. (CD44low CD62Lhigh CD4 T cells from uninfected mice)
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| Sample_geo_accession | GSM418234
| | Sample_status | Public on Jul 28 2009
| | Sample_submission_date | Jun 18 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Splenocytes were isolated and antigen-specific CD4 T cells were enriched using anti-CD45.1-FITC and magnetic bead purification (Miltenyi). Virus-specific SMtg CD4+CD45.1+TCRβ+CD19-7AAD- cells were then sorted into TFH and non-TFH populations on the basis of CXCR5 expression using a FACSAria (BD Biosciences).
| | Sample_growth_protocol_ch1 | All infections were done by intraperitoneal injection of 1-2 x 10^5 plaque-forming units (PFU) of LCMV Armstrong per mouse. 6,000 naïve SMtg (SMARTA LCMV-specific TCR transgenic) CD4 T cells were transferred per mouse, prior to LCMV infection. Spleens were harvested 8 days after LCMV infection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated using Qiagen RNAeasy Mini spin columns (Qiagen), including QiaShredder and on-column digestion of genomic DNA. Some RNA samples were then concentrated using MinElute spin columns (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA quality of all samples was confirmed by BioAnalyzer Nano gel (Agilent), then probes were generated from 30ng total RNA by single round linear amplification using the Ovation Pico system (Nugen).
| | Sample_hyb_protocol | Standard Affymetrix
| | Sample_scan_protocol | Standard Affymetrix
| | Sample_data_processing | MAS5
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shane,,Crotty
| | Sample_contact_email | shane@liai.org
| | Sample_contact_laboratory | VD-Crotty
| | Sample_contact_department | Vaccine Discovery
| | Sample_contact_institute | La Jolla Institute for Allergy and Immunology
| | Sample_contact_address | 9420 Athena Circle
| | Sample_contact_city | San Diego
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 92037
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM418nnn/GSM418234/suppl/GSM418234.CEL.gz
| | Sample_series_id | GSE16697
| | Sample_series_id | GSE21379
| | Sample_series_id | GSE21381
| | Sample_data_row_count | 45101
| | |
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GSM418235 | GPL1261 |
|
CXCR5_Negative_Rep1
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mouse CXCR5+ CD4 T cells
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strain: C57BL6/J Mice
cell type: CD4 T cells
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Gene expression data from CXCR5+CD4+ T follicular helper cells
|
| Sample_geo_accession | GSM418235
| | Sample_status | Public on Jul 28 2009
| | Sample_submission_date | Jun 18 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Splenocytes were isolated and antigen-specific CD4 T cells were enriched using anti-CD45.1-FITC and magnetic bead purification (Miltenyi). Virus-specific SMtg CD4+CD45.1+TCRβ+CD19-7AAD- cells were then sorted into TFH and non-TFH populations on the basis of CXCR5 expression using a FACSAria (BD Biosciences).
| | Sample_growth_protocol_ch1 | All infections were done by intraperitoneal injection of 1-2 x 10^5 plaque-forming units (PFU) of LCMV Armstrong per mouse. 6,000 naïve SMtg (SMARTA LCMV-specific TCR transgenic) CD4 T cells were transferred per mouse, prior to LCMV infection. Spleens were harvested 8 days after LCMV infection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated using Qiagen RNAeasy Mini spin columns (Qiagen), including QiaShredder and on-column digestion of genomic DNA. Some RNA samples were then concentrated using MinElute spin columns (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA quality of all samples was confirmed by BioAnalyzer Nano gel (Agilent), then probes were generated from 30ng total RNA by single round linear amplification using the Ovation Pico system (Nugen).
| | Sample_hyb_protocol | Standard Affymetrix
| | Sample_scan_protocol | Standard Affymetrix
| | Sample_data_processing | MAS5
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shane,,Crotty
| | Sample_contact_email | shane@liai.org
| | Sample_contact_laboratory | VD-Crotty
| | Sample_contact_department | Vaccine Discovery
| | Sample_contact_institute | La Jolla Institute for Allergy and Immunology
| | Sample_contact_address | 9420 Athena Circle
| | Sample_contact_city | San Diego
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 92037
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM418nnn/GSM418235/suppl/GSM418235.CEL.gz
| | Sample_series_id | GSE16697
| | Sample_series_id | GSE21379
| | Sample_series_id | GSE21381
| | Sample_data_row_count | 45101
| | |
|
GSM418236 | GPL1261 |
|
CXCR5_Positive_Rep1
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mouse CXCR5- CD4 T cells
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strain: C57BL6/J Mice
cell type: CD4 T cells
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Gene expression data from CXCR5-CD4+ T cells
|
| Sample_geo_accession | GSM418236
| | Sample_status | Public on Jul 28 2009
| | Sample_submission_date | Jun 18 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Splenocytes were isolated and antigen-specific CD4 T cells were enriched using anti-CD45.1-FITC and magnetic bead purification (Miltenyi). Virus-specific SMtg CD4+CD45.1+TCRβ+CD19-7AAD- cells were then sorted into TFH and non-TFH populations on the basis of CXCR5 expression using a FACSAria (BD Biosciences).
| | Sample_growth_protocol_ch1 | All infections were done by intraperitoneal injection of 1-2 x 10^5 plaque-forming units (PFU) of LCMV Armstrong per mouse. 6,000 naïve SMtg (SMARTA LCMV-specific TCR transgenic) CD4 T cells were transferred per mouse, prior to LCMV infection. Spleens were harvested 8 days after LCMV infection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated using Qiagen RNAeasy Mini spin columns (Qiagen), including QiaShredder and on-column digestion of genomic DNA. Some RNA samples were then concentrated using MinElute spin columns (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA quality of all samples was confirmed by BioAnalyzer Nano gel (Agilent), then probes were generated from 30ng total RNA by single round linear amplification using the Ovation Pico system (Nugen).
| | Sample_hyb_protocol | Standard Affymetrix
| | Sample_scan_protocol | Standard Affymetrix
| | Sample_data_processing | MAS5
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shane,,Crotty
| | Sample_contact_email | shane@liai.org
| | Sample_contact_laboratory | VD-Crotty
| | Sample_contact_department | Vaccine Discovery
| | Sample_contact_institute | La Jolla Institute for Allergy and Immunology
| | Sample_contact_address | 9420 Athena Circle
| | Sample_contact_city | San Diego
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 92037
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM418nnn/GSM418236/suppl/GSM418236.CEL.gz
| | Sample_series_id | GSE16697
| | Sample_series_id | GSE21379
| | Sample_series_id | GSE21381
| | Sample_data_row_count | 45101
| | |
|
GSM418237 | GPL1261 |
|
CXCR5_Negative_Rep2
|
mouse CXCR5+ CD4 T cells
|
strain: C57BL6/J Mice
cell type: CD4 T cells
|
Gene expression data from CXCR5+CD4+ T follicular helper cells
|
| Sample_geo_accession | GSM418237
| | Sample_status | Public on Jul 28 2009
| | Sample_submission_date | Jun 18 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Splenocytes were isolated and antigen-specific CD4 T cells were enriched using anti-CD45.1-FITC and magnetic bead purification (Miltenyi). Virus-specific SMtg CD4+CD45.1+TCRβ+CD19-7AAD- cells were then sorted into TFH and non-TFH populations on the basis of CXCR5 expression using a FACSAria (BD Biosciences).
| | Sample_growth_protocol_ch1 | All infections were done by intraperitoneal injection of 1-2 x 10^5 plaque-forming units (PFU) of LCMV Armstrong per mouse. 6,000 naïve SMtg (SMARTA LCMV-specific TCR transgenic) CD4 T cells were transferred per mouse, prior to LCMV infection. Spleens were harvested 8 days after LCMV infection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated using Qiagen RNAeasy Mini spin columns (Qiagen), including QiaShredder and on-column digestion of genomic DNA. Some RNA samples were then concentrated using MinElute spin columns (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA quality of all samples was confirmed by BioAnalyzer Nano gel (Agilent), then probes were generated from 30ng total RNA by single round linear amplification using the Ovation Pico system (Nugen).
| | Sample_hyb_protocol | Standard Affymetrix
| | Sample_scan_protocol | Standard Affymetrix
| | Sample_data_processing | MAS5
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shane,,Crotty
| | Sample_contact_email | shane@liai.org
| | Sample_contact_laboratory | VD-Crotty
| | Sample_contact_department | Vaccine Discovery
| | Sample_contact_institute | La Jolla Institute for Allergy and Immunology
| | Sample_contact_address | 9420 Athena Circle
| | Sample_contact_city | San Diego
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 92037
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM418nnn/GSM418237/suppl/GSM418237.CEL.gz
| | Sample_series_id | GSE16697
| | Sample_series_id | GSE21379
| | Sample_series_id | GSE21381
| | Sample_data_row_count | 45101
| | |
|
GSM418238 | GPL1261 |
|
CXCR5_Positive_Rep2
|
mouse CXCR5- CD4 T cells
|
strain: C57BL6/J Mice
cell type: CD4 T cells
|
Gene expression data from CXCR5-CD4+ T follicular helper cells
|
| Sample_geo_accession | GSM418238
| | Sample_status | Public on Jul 28 2009
| | Sample_submission_date | Jun 18 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Splenocytes were isolated and antigen-specific CD4 T cells were enriched using anti-CD45.1-FITC and magnetic bead purification (Miltenyi). Virus-specific SMtg CD4+CD45.1+TCRβ+CD19-7AAD- cells were then sorted into TFH and non-TFH populations on the basis of CXCR5 expression using a FACSAria (BD Biosciences).
| | Sample_growth_protocol_ch1 | All infections were done by intraperitoneal injection of 1-2 x 10^5 plaque-forming units (PFU) of LCMV Armstrong per mouse. 6,000 naïve SMtg (SMARTA LCMV-specific TCR transgenic) CD4 T cells were transferred per mouse, prior to LCMV infection. Spleens were harvested 8 days after LCMV infection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated using Qiagen RNAeasy Mini spin columns (Qiagen), including QiaShredder and on-column digestion of genomic DNA. Some RNA samples were then concentrated using MinElute spin columns (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA quality of all samples was confirmed by BioAnalyzer Nano gel (Agilent), then probes were generated from 30ng total RNA by single round linear amplification using the Ovation Pico system (Nugen).
| | Sample_hyb_protocol | Standard Affymetrix
| | Sample_scan_protocol | Standard Affymetrix
| | Sample_data_processing | MAS5
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shane,,Crotty
| | Sample_contact_email | shane@liai.org
| | Sample_contact_laboratory | VD-Crotty
| | Sample_contact_department | Vaccine Discovery
| | Sample_contact_institute | La Jolla Institute for Allergy and Immunology
| | Sample_contact_address | 9420 Athena Circle
| | Sample_contact_city | San Diego
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 92037
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM418nnn/GSM418238/suppl/GSM418238.CEL.gz
| | Sample_series_id | GSE16697
| | Sample_series_id | GSE21379
| | Sample_series_id | GSE21381
| | Sample_data_row_count | 45101
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