Tissue-resident memory CD8+ T cells possess unique transcriptional, epigenetic and functional adaptations to different tissue environments

The downregulation of IL-18R defines bona fide kidney-resident CD8+ T cells

(2021) Wei Liao et al.   iScience

Multi-tissue single-cell analysis deconstructs the complex programs of mouse natural killer and type 1 innate lymphoid cells in tissues and circulation

(2021) Adelle P. McFarland et al.   IMMUNITY

Heterogenous Populations of Tissue-Resident CD8+ T Cells Are Generated in Response to Infection and Malignancy

(2020) J. Justin Milner et al.   IMMUNITY

T Cell Factor 1 Suppresses CD103+ Lung Tissue-Resident Memory T Cell Development

(2020) Jingxia Wu et al.   Cell Reports

Early precursors and molecular determinants of tissue-resident memory CD8+ T lymphocytes revealed by single-cell RNA sequencing

(2020) Nadia S. Kurd et al.   Science Immunology

Organ-specific isoform selection of fatty acid–binding proteins in tissue-resident lymphocytes

(2020) H. Frizzell et al.   Science Immunology

Sensing of ATP via the Purinergic Receptor P2RX7 Promotes CD8+ Trm Cell Generation by Enhancing Their Sensitivity to the Cytokine TGF-β

(2020) Henrique Borges da Silva et al.   IMMUNITY

Structural cells are key regulators of organ-specific immune responses

(2020) Thomas Krausgruber et al.   NATURE

Delineation of a molecularly distinct terminally differentiated memory CD8 T cell population

(2020) J. Justin Milner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Heterogeneity and clonal relationships of adaptive immune cells in ulcerative colitis revealed by single-cell analyses

(2020) Brigid S. Boland et al.   Science Immunology

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage

(2019) Dvir Aran et al.   NATURE IMMUNOLOGY

Taiji: System-level identification of key transcription factors reveals transcriptional waves in mouse embryonic development

(2019) Kai Zhang et al.   Science Advances

Comparative analysis reveals a role for TGF-β in shaping the residency-related transcriptional signature in tissue-resident memory CD8+ T cells

(2019) Artika P. Nath et al.   PLoS One

CD4+ resident memory T cells dominate immunosurveillance and orchestrate local recall responses

(2019) Lalit K. Beura et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Tissue-Resident T Cells and Other Resident Leukocytes

(2019) David Masopust et al.   Annual Review of Immunology

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Migratory DCs activate TGF-β to precondition naïve CD8+ T cells for tissue-resident memory fate

(2019) Vinidhra Mani et al.   SCIENCE

Recovering Gene Interactions from Single-Cell Data Using Data Diffusion

(2018) David van Dijk et al.   CELL

Transcriptional programming of tissue-resident memory CD8 + T cells

(2018) J Justin Milner et al.   CURRENT OPINION IN IMMUNOLOGY

The Transcription Factor Runx3 Establishes Chromatin Accessibility of cis -Regulatory Landscapes that Drive Memory Cytotoxic T Lymphocyte Formation

(2018) Dapeng Wang et al.   IMMUNITY

The purinergic receptor P2RX7 directs metabolic fitness of long-lived memory CD8+ T cells

(2018) Henrique Borges da Silva et al.   NATURE

Tissue signals imprint ILC2 identity with anticipatory function

(2018) Roberto R. Ricardo-Gonzalez et al.   NATURE IMMUNOLOGY

White Adipose Tissue Is a Reservoir for Memory T Cells and Promotes Protective Memory Responses to Infection

(2017) Seong-Ji Han et al.   IMMUNITY

The transcriptional repressor HIC1 regulates intestinal immune homeostasis

(2017) K Burrows et al.   Mucosal Immunology

Survival of tissue-resident memory T cells requires exogenous lipid uptake and metabolism

(2017) Youdong Pan et al.   NATURE

Runx3 programs CD8+ T cell residency in non-lymphoid tissues and tumours

(2017) J. Justin Milner et al.   NATURE

SCENIC: single-cell regulatory network inference and clustering

(2017) Sara Aibar et al.   NATURE METHODS

The Encyclopedia of DNA elements (ENCODE): data portal update

(2017) Carrie A Davis et al.   NUCLEIC ACIDS RESEARCH

ABC transporters and NR4A1 identify a quiescent subset of tissue-resident memory T cells

(2016) Chandra Sekhar Boddupalli et al.   JOURNAL OF CLINICAL INVESTIGATION

Local antigen in nonlymphoid tissue promotes resident memory CD8+T cell formation during viral infection

(2016) Tahsin N. Khan et al.   JOURNAL OF EXPERIMENTAL MEDICINE

TGF-β Controls the Formation of Kidney-Resident T Cells via Promoting Effector T Cell Extravasation

(2016) Chaoyu Ma et al.   JOURNAL OF IMMUNOLOGY

IL-15–Independent Maintenance of Tissue-Resident and Boosted Effector Memory CD8 T Cells

(2016) Jason M. Schenkel et al.   JOURNAL OF IMMUNOLOGY

Contraction of intestinal effector T cells by retinoic acid-induced purinergic receptor P2X7

(2016) S Hashimoto-Hill et al.   Mucosal Immunology

Programs for the persistence, vigilance and control of human CD8+ lung-resident memory T cells

(2016) Pleun Hombrink et al.   NATURE IMMUNOLOGY

Hobit and Blimp1 instruct a universal transcriptional program of tissue residency in lymphocytes

(2016) L. K. Mackay et al.   SCIENCE

Quantifying Memory CD8 T Cells Reveals Regionalization of Immunosurveillance

(2015) Elizabeth M. Steinert et al.   CELL

T-box Transcription Factors Combine with the Cytokines TGF-β and IL-15 to Control Tissue-Resident Memory T Cell Fate

(2015) Laura K. Mackay et al.   IMMUNITY

The Salivary Gland Acts as a Sink for Tissue-Resident Memory CD8 + T Cells, Facilitating Protection from Local Cytomegalovirus Infection

(2015) Jenny Tosca Thom et al.   Cell Reports

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Tissue-Resident Macrophage Enhancer Landscapes Are Shaped by the Local Microenvironment

(2014) Yonit Lavin et al.   CELL

CXCL12 secreted from adipose tissue recruits macrophages and induces insulin resistance in mice

(2014) Dayea Kim et al.   DIABETOLOGIA

In Vivo RNA Interference Screens Identify Regulators of Antiviral CD4+ and CD8+ T Cell Differentiation

(2014) Runqiang Chen et al.   IMMUNITY

High Sensitivity of Intestinal CD8+ T Cells to Nucleotides Indicates P2X7 as a Regulator for Intestinal T Cell Responses

(2014) K. Heiss et al.   JOURNAL OF IMMUNOLOGY

Intravascular staining for discrimination of vascular and tissue leukocytes

(2014) Kristin G Anderson et al.   Nature Protocols

EGR2 is critical for peripheral naïve T-cell differentiation and the T-cell response to influenza

(2014) Ning Du et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Persistence of skin-resident memory T cells within an epidermal niche

(2014) A. Zaid et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

GSVA: gene set variation analysis for microarray and RNA-Seq data

(2013) Sonja Hänzelmann et al.   BMC BIOINFORMATICS

Transforming Growth Factor-β Signaling Controls the Formation and Maintenance of Gut-Resident Memory T Cells by Regulating Migration and Retention

(2013) Nu Zhang et al.   IMMUNITY

Transcriptional downregulation of S1pr1 is required for the establishment of resident memory CD8+ T cells

(2013) Cara N Skon et al.   NATURE IMMUNOLOGY

The developmental pathway for CD103+CD8+ tissue-resident memory T cells of skin

(2013) Laura K Mackay et al.   NATURE IMMUNOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Antigen-Independent Differentiation and Maintenance of Effector-like Resident Memory T Cells in Tissues

(2012) K. A. Casey et al.   JOURNAL OF IMMUNOLOGY

Differential oestrogen receptor binding is associated with clinical outcome in breast cancer

(2012) Caryn S. Ross-Innes et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Memory T cells in nonlymphoid tissue that provide enhanced local immunity during infection with herpes simplex virus

(2009) Thomas Gebhardt et al.   NATURE IMMUNOLOGY

From the diet to the nucleus: Vitamin A and TGF-β join efforts at the mucosal interface of the intestine

(2008) Daniel Mucida et al.   SEMINARS IN IMMUNOLOGY