Automatic identification of informative regions with epigenomic changes associated to hematopoiesis

Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution

(2016) M Ryan Corces et al.   NATURE GENETICS

Genomic Classification in Acute Myeloid Leukemia

(2016)   NEW ENGLAND JOURNAL OF MEDICINE

Jointly characterizing epigenetic dynamics across multiple human cell types

(2016) Yu Zhang et al.   NUCLEIC ACIDS RESEARCH

Epigenomic regulation of oncogenesis by chromatin remodeling

(2016) R Kumar et al.   ONCOGENE

Leukaemia cell of origin identified by chromatin landscape of bulk tumour cells

(2016) Joshy George et al.   Nature Communications

Epigenomic Co-localization and Co-evolution Reveal a Key Role for 5hmC as a Communication Hub in the Chromatin Network of ESCs

(2016) David Juan et al.   Cell Reports

The BLUEPRINT Data Analysis Portal

(2016) José María Fernández et al.   Cell Systems

hiHMM: Bayesian non-parametric joint inference of chromatin state maps

(2015) Kyung-Ah Sohn et al.   BIOINFORMATICS

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

(2015) Franziska Paul et al.   CELL

Chromatin deregulation in disease

(2015) Anne C. Mirabella et al.   CHROMOSOMA

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

Histone exchange, chromatin structure and the regulation of transcription

(2015) Swaminathan Venkatesh et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Reactome pathway Knowledgebase

(2015) Antonio Fabregat et al.   NUCLEIC ACIDS RESEARCH

Enhancer repertoires are reshaped independently of early priming and heterochromatin dynamics during B cell differentiation

(2015) Mohamed-Amin Choukrallah et al.   Nature Communications

Chromatin segmentation based on a probabilistic model for read counts explains a large portion of the epigenome

(2015) Alessandro Mammana et al.   GENOME BIOLOGY

The Many Alternative Faces of Macrophage Activation

(2015) David A. Hume   Frontiers in Immunology

The Runx-PU.1 pathway preserves normal and AML/ETO9a leukemic stem cells

(2014) P. B. Staber et al.   BLOOD

GATA2 regulates differentiation of bone marrow-derived mesenchymal stem cells

(2014) M. Kamata et al.   HAEMATOLOGICA

Germinal center B cell maintenance and differentiation are controlled by distinct NF-κB transcription factor subunits

(2014) Nicole Heise et al.   JOURNAL OF EXPERIMENTAL MEDICINE

COSMIC: exploring the world's knowledge of somatic mutations in human cancer

(2014) Simon A. Forbes et al.   NUCLEIC ACIDS RESEARCH

Chromatin state dynamics during blood formation

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

Transcriptional dissection of pancreatic tumors engrafted in mice

(2014) Raquel Martinez-Garcia et al.   Genome Medicine

Characterizing the human hematopoietic CDome

(2014) Mike Stein Barnkob et al.   Frontiers in Genetics

A Critical Role for Macrophages Near Axotomized Neuronal Cell Bodies in Stimulating Nerve Regeneration

(2013) J. P. Niemi et al.   JOURNAL OF NEUROSCIENCE

GATA-3 regulates the self-renewal of long-term hematopoietic stem cells

(2013) Catherine Frelin et al.   NATURE IMMUNOLOGY

From neural development to cognition: unexpected roles for chromatin

(2013) Jehnna L. Ronan et al.   NATURE REVIEWS GENETICS

Expression of activating transcription factor 2 in inflammatory macrophages in obese adipose tissue

(2013) Yugo Miyata et al.   Obesity

GATA-3 regulates hematopoietic stem cell maintenance and cell-cycle entry

(2012) C.-J. Ku et al.   BLOOD

Hematopoiesis: A Human Perspective

(2012) Sergei Doulatov et al.   Cell Stem Cell

Transcription factor Ebf1 regulates differentiation stage-specific signaling, proliferation, and survival of B cells

(2012) I. Gyory et al.   GENES & DEVELOPMENT

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Critical Differences in Hematopoiesis and Lymphoid Development between Humans and Mice

(2012) Chintan Parekh et al.   JOURNAL OF CLINICAL IMMUNOLOGY

Essential role of EBF1 in the generation and function of distinct mature B cell types

(2012) Bojan Vilagos et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Regulation of inflammation by interleukin-4: a review of “alternatives”

(2012) Irina G. Luzina et al.   JOURNAL OF LEUKOCYTE BIOLOGY

DNA Methylation Dynamics during In Vivo Differentiation of Blood and Skin Stem Cells

(2012) Christoph Bock et al.   MOLECULAR CELL

Epigenomic analysis detects widespread gene-body DNA hypomethylation in chronic lymphocytic leukemia

(2012) Marta Kulis et al.   NATURE GENETICS

Unsupervised pattern discovery in human chromatin structure through genomic segmentation

(2012) Michael M Hoffman et al.   NATURE METHODS

ChromHMM: automating chromatin-state discovery and characterization

(2012) Jason Ernst et al.   NATURE METHODS

Master regulatory GATA transcription factors: mechanistic principles and emerging links to hematologic malignancies

(2012) E. H. Bresnick et al.   NUCLEIC ACIDS RESEARCH

Hematopoiesis

(2012) M. A. Rieger et al.   Cold Spring Harbor Perspectives in Biology

Regulation of chromatin by histone modifications

(2011) Andrew J Bannister et al.   CELL RESEARCH

NR4A1 (Nur77) Deletion Polarizes Macrophages Toward an Inflammatory Phenotype and Increases Atherosclerosis

(2011) Richard N. Hanna et al.   CIRCULATION RESEARCH

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

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

Comprehensive methylome map of lineage commitment from haematopoietic progenitors

(2010) Hong Ji et al.   NATURE

Chromatin remodelling during development

(2010) Lena Ho et al.   NATURE

Discovery and characterization of chromatin states for systematic annotation of the human genome

(2010) Jason Ernst et al.   NATURE BIOTECHNOLOGY

Protein interactions and ligand binding: From protein subfamilies to functional specificity

(2010) A. Rausell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The 2008 revision of the World Health Organization (WHO) classification of myeloid neoplasms and acute leukemia: rationale and important changes

(2009) J. W. Vardiman et al.   BLOOD

Lymphoid-affiliated genes are associated with active histone modifications in human hematopoietic stem cells

(2008) J. Maes et al.   BLOOD

A role for Fli-1 in B cell proliferation: Implications for SLE pathogenesis

(2008) Sarah Bradshaw et al.   CLINICAL IMMUNOLOGY

Differential H3K4 Methylation Identifies Developmentally Poised Hematopoietic Genes

(2008) Keith Orford et al.   DEVELOPMENTAL CELL

Adult T-cell progenitors retain myeloid potential

(2008) Haruka Wada et al.   NATURE

Jund is a determinant of macrophage activation and is associated with glomerulonephritis susceptibility

(2008) Jacques Behmoaras et al.   NATURE GENETICS