The macrophage IRF8/IRF1 regulome is required for protection against infections and is associated with chronic inflammation

A dualcis-regulatory code links IRF8 to constitutive and inducible gene expression in macrophages

(2015) Alessandra Mancino et al.   GENES & DEVELOPMENT

Functional characterization of the human dendritic cell immunodeficiency associated with the IRF8K108E mutation

(2014) S. Salem et al.   BLOOD

Transcription factor IRF8 plays a critical role in the development of murine basophils and mast cells

(2014) H. Sasaki et al.   BLOOD

A novel role for interferon regulatory factor 1 (IRF1) in regulation of bone metabolism

(2014) Sandra Salem et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

Coregulation of Transcription Factor Binding and Nucleosome Occupancy through DNA Features of Mammalian Enhancers

(2014) Iros Barozzi et al.   MOLECULAR CELL

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

(2014) B. P. Fairfax et al.   SCIENCE

IRF8 inhibits C/EBPα activity to restrain mononuclear phagocyte progenitors from differentiating into neutrophils

(2014) Daisuke Kurotaki et al.   Nature Communications

Primary Immunodeficiency Diseases: An Update on the Classification from the International Union of Immunological Societies Expert Committee for Primary Immunodeficiency

(2014) Waleed Al-Herz et al.   Frontiers in Immunology

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

(2013) Y. Liao et al.   BIOINFORMATICS

Latent Enhancers Activated by Stimulation in Differentiated Cells

(2013) Renato Ostuni et al.   CELL

Genetics of rheumatoid arthritis contributes to biology and drug discovery

(2013) Yukinori Okada et al.   NATURE

Analysis of immune-related loci identifies 48 new susceptibility variants for multiple sclerosis

(2013) Ashley H Beecham et al.   NATURE GENETICS

Microglia emerge from erythromyeloid precursors via Pu.1- and Irf8-dependent pathways

(2013) Katrin Kierdorf et al.   NATURE NEUROSCIENCE

Mechanisms of in vivo binding site selection of the hematopoietic master transcription factor PU.1

(2013) Thu-Hang Pham et al.   NUCLEIC ACIDS RESEARCH

Irf8-Regulated Genomic Responses Drive Pathological Inflammation during Cerebral Malaria

(2013) Joanne Berghout et al.   PLoS Pathogens

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

IFN-Inducible GTPases in Host Cell Defense

(2012) Bae-Hoon Kim et al.   Cell Host & Microbe

A High-Throughput Chromatin Immunoprecipitation Approach Reveals Principles of Dynamic Gene Regulation in Mammals

(2012) Manuel Garber et al.   MOLECULAR CELL

BATF–JUN is critical for IRF4-mediated transcription in T cells

(2012) Peng Li et al.   NATURE

Host–microbe interactions have shaped the genetic architecture of inflammatory bowel disease

(2012) Luke Jostins et al.   NATURE

Requirement for the histone deacetylase Hdac3 for the inflammatory gene expression program in macrophages

(2012) X. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Genomic Regulatory Element That Directs Assembly and Function of Immune-Specific AP-1-IRF Complexes

(2012) E. Glasmacher et al.   SCIENCE

IRF8Mutations and Human Dendritic-Cell Immunodeficiency

(2011) Sophie Hambleton et al.   NEW ENGLAND JOURNAL OF MEDICINE

I B kinase   (IKK ) regulates the balance between type I and type II interferon responses

(2011) S.-L. Ng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Association of NCF2, IKZF1, IRF8, IFIH1, and TYK2 with Systemic Lupus Erythematosus

(2011) Deborah S. Cunninghame Graham et al.   PLoS Genetics

PeakAnalyzer: Genome-wide annotation of chromatin binding and modification loci

(2010) Mali Salmon-Divon et al.   BMC BIOINFORMATICS

Identification and Characterization of Enhancers Controlling the Inflammatory Gene Expression Program in Macrophages

(2010) Serena Ghisletti et al.   IMMUNITY

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

A Pituitary-Specific Enhancer of the POMC Gene with Preferential Activity in Corticotrope Cells

(2010) David Langlais et al.   MOLECULAR ENDOCRINOLOGY

The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells

(2010) Atsutaka Kubosaki et al.   MOLECULAR IMMUNOLOGY

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Cross-regulation of Signaling Pathways by Interferon-γ: Implications for Immune Responses and Autoimmune Diseases

(2009) Xiaoyu Hu et al.   IMMUNITY

Disseminated and Rapidly Fatal Tuberculosis in Mice Bearing a Defective Allele at IFN Regulatory Factor 8

(2009) J.-F. Marquis et al.   JOURNAL OF IMMUNOLOGY

Genetic and Functional Characterization of the Mouse Trl3 Locus in Defense against Tuberculosis

(2009) J.-F. Marquis et al.   JOURNAL OF IMMUNOLOGY

Interferon regulatory factor-8 regulates bone metabolism by suppressing osteoclastogenesis

(2009) Baohong Zhao et al.   NATURE MEDICINE

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

The IRF Family Transcription Factors in Immunity and Oncogenesis

(2008) Tomohiko Tamura et al.   Annual Review of Immunology

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY