GEO DataSets

(Submitter supplied) Persistent viral infections and tumors drive development of exhausted T (TEX) cells. In these settings, TEX cells establish an important host-pathogen or host-tumor stalemate. However, TEX cells erode over time, leading to loss of pathogen or cancer containment. We identified microRNA (miR)-155 as a key regulator of sustained TEX cell responses during chronic lymphocytic choriomeningitis virus (LCMV) infection. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

12 Samples

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other

Platforms:

GPL21103 GPL21273

12 Samples

Download data: BW, TXT

(Submitter supplied) The goal of this study is to determine the capacity of Tcf1 to reprogram exhausted CD8+ T cells for function restoration. Tex cells elicited by chronic infection contain a CXCR5+Tim3– subset that has stem cell-like self-renewing capacity and expresses an elevated level of Tcf1 (termed Tex-stem), and Tex-stem cells depend on Tcf1 for generation and persistence. We show that ectopic Tcf1 expression profoundly affected the transcriptome of Tex cells.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

4 Samples

Download data: TXT

(Submitter supplied) The goal of this study is to determine the capacity of Tcf1 to reprogram exhausted CD8+ T cells for function restoration. Tex cells elicited by chronic infection contain a CXCR5+Tim3– subset that has stem cell-like self-renewing capacity and expresses an elevated level of Tcf1 (termed Tex-stem), and Tex-stem cells depend on Tcf1 for generation and persistence. We show that ectopic Tcf1 expression profoundly affected the transcriptome and chromatin accessibility of Tex cells.

Organism:

Mus musculus

Type:

Other

Platform:

GPL21273

2 Samples

Download data: BW

(Submitter supplied) The goal of this study is to determine the capacity of Tcf1 to reprogram exhausted CD8+ T cells for function restoration. Tex cells elicited by chronic infection contain a CXCR5+Tim3– subset that has stem cell-like self-renewing capacity and expresses an elevated level of Tcf1 (termed Tex-stem), and Tex-stem cells depend on Tcf1 for generation and persistence. We show that ectopic Tcf1 expression profoundly affected the chromatin accessibility of Tex cells.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21273

6 Samples

Download data: BW

(Submitter supplied) Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19057

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

5 Samples

Download data: TXT

(Submitter supplied) Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19057

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19057

29 Samples

Download data: TXT

(Submitter supplied) miRNA profiling of Db-GP33-41 specific murine CD8 T cells following infection with LCMV Armstrong

Organism:

Human gammaherpesvirus 8; Rattus norvegicus; JC polyomavirus; Betapolyomavirus hominis; Homo sapiens; Mus musculus; Human betaherpesvirus 5; Human immunodeficiency virus 1; Human alphaherpesvirus 1; human gammaherpesvirus 4; Betapolyomavirus macacae

Type:

Non-coding RNA profiling by array

Platform:

GPL7724

18 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21626

23 Samples

Download data: BED

(Submitter supplied) Open chromatin accessibility analysis of four defiined CD8 Tcell subsets to understand the mechanism of exhaustion hierarchy

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21626

11 Samples

Download data: BED, TXT

(Submitter supplied) Transcriptional study of four defiined CD8 Tcell subset to understand the mechanism of exhaustion hierarchy

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21626

12 Samples

Download data: CSV

(Submitter supplied) We have recently defined a novel population of PD-1+TCF1+virus-specific CD8 T cells that function as resource cells during chronic LCMV infection and provide the proliferative burst seen after PD-1 blockade. Such CD8 T cells have been found in other chronic infections and also in cancer in mice and humans. These CD8 T cells exhibit stem-like properties undergoing self-renewal and also giving rise to the terminally differentiated (exhausted) CD8 T cells. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

6 Samples

Download data: TXT

(Submitter supplied) We report that the microRNA (miR)-31 confers CD8 T cell sensitivity to type I interferon (IFN) stimulation following CD3/CD28 engagement. Method: miR31 WT and KO CD8 T cells were stimulated with anti-CD3/CD28 beads for two days, then maintained in 10ng/mL IL-2 for a further 5 days. CD8 T cells were then stimulated with 20ng/mL IFN-beta for 0, 4, or 18h. Total RNA was isolated at each time point and sequenced. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

18 Samples

Download data: CSV

(Submitter supplied) In this study we investigated the role of NFATs in the regulation regulation of gene expression and transcriptional elongation in vitro.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL14602

8 Samples

Download data: BED

(Submitter supplied) Purpose: identify genes regulated by expression of miR-31 in primary mouse CD8 T-cells by exogenously expressing pre-miR-31 from the Plko.3g lentiviral vector. Cells infected with empty Plko.3g vectors were used as controls for infection.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

8 Samples

Download data: CEL

(Submitter supplied) Using the 10X Genomics platform, we performed single cell RNA-sequencing on activated T cells from LCMV clone 13-infected control or CD4-cre+ Trib1-floxed mice to determine how Trib1 regulates T cell population dynamics during chronic infection.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21626

2 Samples

Download data: MTX, TSV