Single‐Cell RNA‐Seq of T Cells in B‐ALL Patients Reveals an Exhausted Subset with Remarkable Heterogeneity

Mechanisms of Immune Evasion in Acute Lymphoblastic Leukemia

(2021) Agata Pastorczak et al.   Cancers

Clonally expanded CD8 T cells patrol the cerebrospinal fluid in Alzheimer’s disease

(2020) David Gate et al.   NATURE

Peripheral CD8+ T cell characteristics associated with durable responses to immune checkpoint blockade in patients with metastatic melanoma

(2020) Benjamin P. Fairfax et al.   NATURE MEDICINE

Extensive Remodeling of the Immune Microenvironment in B Cell Acute Lymphoblastic Leukemia

(2020) Matthew T. Witkowski et al.   CANCER CELL

Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

(2020) Hanjie Li et al.   CELL

Scirpy: a Scanpy extension for analyzing single-cell T-cell receptor-sequencing data

(2020) Gregor Sturm et al.   BIOINFORMATICS

Reversible suppression of T cell function in the bone marrow microenvironment of acute myeloid leukemia

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

Benchmarking Computational Doublet-Detection Methods for Single-Cell RNA Sequencing Data

(2020) Nan Miles Xi et al.   Cell Systems

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

(2019) Dvir Aran et al.   NATURE IMMUNOLOGY

Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity

(2019) Peter van Galen et al.   CELL

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

(2019) Yingyao Zhou et al.   Nature Communications

MAIT Cells Promote Tumor Initiation, Growth, and Metastases via Tumor MR1

(2019) Juming Yan et al.   Cancer Discovery

T Cell Dysfunction in Cancer

(2018) Daniela S. Thommen et al.   CANCER CELL

Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment

(2018) Elham Azizi et al.   CELL

Engineering chimeric antigen receptor-T cells for cancer treatment

(2018) Baixin Ye et al.   Molecular Cancer

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Global characterization of T cells in non-small-cell lung cancer by single-cell sequencing

(2018) Xinyi Guo et al.   NATURE MEDICINE

Single-cell profiling of breast cancer T cells reveals a tissue-resident memory subset associated with improved prognosis

(2018) Peter Savas et al.   NATURE MEDICINE

Phenotype molding of stromal cells in the lung tumor microenvironment

(2018) Diether Lambrechts et al.   NATURE MEDICINE

Cancer immunotherapy using checkpoint blockade

(2018) Antoni Ribas et al.   SCIENCE

Profiling human breast epithelial cells using single cell RNA sequencing identifies cell diversity

(2018) Quy H. Nguyen et al.   Nature Communications

Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

(2018) Hanjie Li et al.   CELL

Lineage tracking reveals dynamic relationships of T cells in colorectal cancer

(2018) Lei Zhang et al.   NATURE

Elements of cancer immunity and the cancer–immune set point

(2017) Daniel S. Chen et al.   NATURE

Single-Cell Genomics: Approaches and Utility in Immunology

(2017) Karlynn E. Neu et al.   TRENDS IN IMMUNOLOGY

Hallmarks of Tissue-Resident Lymphocytes

(2016) Xiying Fan et al.   CELL

Loss of ITM2A, a novel tumor suppressor of ovarian cancer through G2/M cell cycle arrest, is a poor prognostic factor of epithelial ovarian cancer

(2016) Thi My Hien Nguyen et al.   GYNECOLOGIC ONCOLOGY

Tumor-Specific T Cell Dysfunction Is a Dynamic Antigen-Driven Differentiation Program Initiated Early during Tumorigenesis

(2016) Andrea Schietinger et al.   IMMUNITY

Defining CD8+ T cells that provide the proliferative burst after PD-1 therapy

(2016) Se Jin Im et al.   NATURE

T cell fate and clonality inference from single-cell transcriptomes

(2016) Michael J T Stubbington et al.   NATURE METHODS

Restricting nonclassical MHC genes coevolve with TRAV genes used by innate-like T cells in mammals

(2016) Pierre Boudinot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

(2016) I. Tirosh et al.   SCIENCE

Immune Checkpoint Blockade: A Common Denominator Approach to Cancer Therapy

(2015) Suzanne L. Topalian et al.   CANCER CELL

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Tim-3 and Tim-4 as the potential targets for antitumor therapy

(2015) Lin Cheng et al.   Human Vaccines & Immunotherapeutics

Linking T-cell receptor sequence to functional phenotype at the single-cell level

(2014) Arnold Han et al.   NATURE BIOTECHNOLOGY

Chimeric Antigen Receptor T Cells for Sustained Remissions in Leukemia

(2014) Shannon L. Maude et al.   NEW ENGLAND JOURNAL OF MEDICINE

An expression atlas of human primary cells: inference of gene function from coexpression networks

(2013) Neil A Mabbott et al.   BMC GENOMICS

BLUEPRINT: mapping human blood cell epigenomes

(2013) J. H. A. Martens et al.   HAEMATOLOGICA

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

(2012) Daniel Ramsköld et al.   NATURE BIOTECHNOLOGY

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Densely Interconnected Transcriptional Circuits Control Cell States in Human Hematopoiesis

(2011) Noa Novershtern et al.   CELL

BCR–ABL1 lymphoblastic leukaemia is characterized by the deletion of Ikaros

(2008) Charles G. Mullighan et al.   NATURE

Treatment of Adult Acute Lymphoblastic Leukemia

(2008) Nicola Gökbuget et al.   SEMINARS IN HEMATOLOGY