Writ large: Genomic dissection of the effect of cellular environment on immune response

Tissue Tregs

(2016) Marisella Panduro et al.   Annual Review of Immunology

T cell fate and clonality inference from single-cell transcriptomes

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

Microglia development follows a stepwise program to regulate brain homeostasis

(2016) O. Matcovitch-Natan et al.   SCIENCE

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

(2016) I. Tirosh et al.   SCIENCE

A Distinct Function of Regulatory T Cells in Tissue Protection

(2015) Nicholas Arpaia et al.   CELL

Single-Cell Genomics Unveils Critical Regulators of Th17 Cell Pathogenicity

(2015) Jellert T. Gaublomme et al.   CELL

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

(2015) Franziska Paul et al.   CELL

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

(2015) Evan Z. Macosko et al.   CELL

Antigen- and Cytokine-Driven Accumulation of Regulatory T Cells in Visceral Adipose Tissue of Lean Mice

(2015) Dmitriy Kolodin et al.   Cell Metabolism

Effector T cell differentiation: are master regulators of effector T cells still the masters?

(2015) Chao Wang et al.   CURRENT OPINION IN IMMUNOLOGY

Immune homeostasis enforced by co-localized effector and regulatory T cells

(2015) Zhiduo Liu et al.   NATURE

Th17 cells transdifferentiate into regulatory T cells during resolution of inflammation

(2015) Nicola Gagliani et al.   NATURE

Spatially resolved, highly multiplexed RNA profiling in single cells

(2015) K. H. Chen et al.   SCIENCE

Tissue-Specific Signals Control Reversible Program of Localization and Functional Polarization of Macrophages

(2014) Yasutaka Okabe et al.   CELL

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

(2014) Yonit Lavin et al.   CELL

Environment Drives Selection and Function of Enhancers Controlling Tissue-Specific Macrophage Identities

(2014) David Gosselin et al.   CELL

Control of the Inheritance of Regulatory T Cell Identity by a cis Element in the Foxp3 Locus

(2014) Yongqiang Feng et al.   CELL

Transcriptome-Based Network Analysis Reveals a Spectrum Model of Human Macrophage Activation

(2014) Jia Xue et al.   IMMUNITY

The alarmin IL-33 promotes regulatory T-cell function in the intestine

(2014) Chris Schiering et al.   NATURE

Multiplexed ion beam imaging of human breast tumors

(2014) Michael Angelo et al.   NATURE MEDICINE

Chromatin state dynamics during blood formation

(2014) D. Lara-Astiaso et al.   SCIENCE

Common Genetic Variants Modulate Pathogen-Sensing Responses in Human Dendritic Cells

(2014) M. N. Lee et al.   SCIENCE

Innate Immune Activity Conditions the Effect of Regulatory Variants upon Monocyte Gene Expression

(2014) B. P. Fairfax et al.   SCIENCE

Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types

(2014) D. A. Jaitin et al.   SCIENCE

A Special Population of Regulatory T Cells Potentiates Muscle Repair

(2013) Dalia Burzyn et al.   CELL

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Dynamic regulatory network controlling TH17 cell differentiation

(2013) Nir Yosef et al.   NATURE

Macrophage biology in development, homeostasis and disease

(2013) Thomas A. Wynn et al.   NATURE

Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli

(2013) Irit Gat-Viks et al.   NATURE BIOTECHNOLOGY

Identification of transcriptional regulators in the mouse immune system

(2013) Vladimir Jojic et al.   NATURE IMMUNOLOGY

A Validated Regulatory Network for Th17 Cell Specification

(2012) Maria Ciofani et al.   CELL

PPAR-γ is a major driver of the accumulation and phenotype of adipose tissue Treg cells

(2012) Daniela Cipolletta et al.   NATURE

A multiply redundant genetic switch 'locks in' the transcriptional signature of regulatory T cells

(2012) Wenxian Fu et al.   NATURE IMMUNOLOGY

Transcription factor Foxp3 and its protein partners form a complex regulatory network

(2012) Dipayan Rudra et al.   NATURE IMMUNOLOGY

Gene-expression profiles and transcriptional regulatory pathways that underlie the identity and diversity of mouse tissue macrophages

(2012) Emmanuel L Gautier et al.   NATURE IMMUNOLOGY

Densely Interconnected Transcriptional Circuits Control Cell States in Human Hematopoiesis

(2011) Noa Novershtern et al.   CELL

Impulse Control: Temporal Dynamics in Gene Transcription

(2011) Nir Yosef et al.   CELL

Th17 Cells Are Long Lived and Retain a Stem Cell-like Molecular Signature

(2011) Pawel Muranski et al.   IMMUNITY

Inflammatory signals regulate hematopoietic stem cells

(2011) Megan T. Baldridge et al.   TRENDS IN IMMUNOLOGY

Epigenetic Instability of Cytokine and Transcription Factor Gene Loci Underlies Plasticity of the T Helper 17 Cell Lineage

(2010) Ryuta Mukasa et al.   IMMUNITY

Control of Inducible Gene Expression by Signal-Dependent Transcriptional Elongation

(2009) Diana C. Hargreaves et al.   CELL

Unbiased Reconstruction of a Mammalian Transcriptional Network Mediating Pathogen Responses

(2009) I. Amit et al.   SCIENCE