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RNA-Seq analysis of Tcf7-deficient and -sufficient lung CD8+ TRM cells after influenza infection

ABSTRACT: RNA-Seq analysis of Tcf7-deficient and -sufficient lung CD8+ TRM cells after influenza infection

PROVIDER: PRJNA558369 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9892972.fastq.gz	Fastqsanger.gz
	SRR9892973.fastq.gz	Fastqsanger.gz
	SRR9892974.fastq.gz	Fastqsanger.gz
	SRR9892975.fastq.gz	Fastqsanger.gz
	SRR9892976.fastq.gz	Fastqsanger.gz

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RNA-Seq analysis of Tcf7-deficient and -sufficient lung CD8+ TRM cells after influenza infection

Project description:T cell factor 1 (Tcf1, encoded by Tcf7) promotes the central memory CD8+ T cell (TCM) differentiation and homeostatic proliferation in lymphoid tissues. It remains unclear if and how Tcf1 regulates the CD103high tissue-resident memory CD8+ T cell (TRM) formation in non-lymphoid tissues. Using an influenza A infection mouse model, we collected Tcf7-deficient and -sufficient lung CD8+ TRM cells for RNA sequencing analysis.

2020-03-16 | GSE135309 | GEO

Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors

Project description:Stem-like TCF7+ CD8 T cells sustain anti-tumor responses and support immune checkpoint blockade. We systematically identified regulators of this cell state using genome-wide CRISPR screens in primary T cells in vitro. Using random barcodes to link clonal relationships with guide identity and transcriptional states in single cells, we inferred differentiation trajectories and differentiation rates of CD8 T cells in tumors, while mitigating confounding clonal bias. We found that Trim28-deficient T cells in tumors were enriched in the TCF7+ cell state, depleted in cycling and terminal effector states, and uniquely generating a tissue resident memory (TRM)-like state with increased chromatin accessibility at known TRM loci as well as repeat elements. Despite the increase in TCF7+ CD8 T cells, loss of Trim28 did not improve tumor control, likely because of reduced effector differentiation, highlighting the need for tuning the balance and dynamics of stem-like versus effector states for effective tumor clearance.

2026-07-09 | GSE334890 | GEO

Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors [Multiome]

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Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors [CRISPR Screen]

2026-06-30 | GSE334846 | GEO

Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors [RNA-Seq]

2026-06-30 | GSE334845 | GEO

Trancriptional comparison of Zbtb32-deficient and -sufficient cells

Project description:Trancriptional comparison of Zbtb32-deficient and -sufficient cells

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Gene expression analysis of Tcf7-deficient thymocytes and natural killer cells

Project description:Gene expression analysis of Tcf7-deficient thymocytes and natural killer cells

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Microarray data for Bhlhe40-sufficient and -deficient resident macrophages

Project description:Microarray data for Bhlhe40-sufficient and -deficient resident macrophages

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Transcriptional profile of Smad4-deficient CTLs is similar to TRM

Project description:Transcriptional profile of Smad4-deficient CTLs is similar to TRM

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Tcf7 biology in mouse beta-cells

Project description:We set out to identify differences in the transcriptome influenced by knockout of the transcription factor T-cell factor 7 (Tcf7) in mouse islets. Furthermore, we wanted to determine if metabolic stress (age,diet) influences these changes. Therefore, we compared the islet transcriptome from WT and Tcf7-/- mice both at a young age (8 weeks old) fed a low fat (10%) diet, versus WT and Tcf7-/- mice at an old age (20 weeks old) on a high-fat (45%) diet. Tcf7-/- mice and littermate wildtype mice were compared. Mice were placed on either a low-fat (10%) or high-fat (45%) diet at weeks of age. For the low fat group, islets from 8 week old mice were isolated and total RNA was extracted with Trizol. For the high fat group, islets from 20 week old mice were isolated and total RNA was extracted with Trizol.

2015-11-21 | E-GEOD-65361 | biostudies-arrayexpress

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