Human monocyte-to-macrophage differentiation involves highly localized gain and loss of DNA methylation at transcription factor binding sites

omicsPrint: detection of data linkage errors in multiple omics studies

(2018) Maarten van Iterson et al.   BIOINFORMATICS

Selective Survival of Embryos Can Explain DNA Methylation Signatures of Adverse Prenatal Environments

(2018) Elmar W. Tobi et al.   Cell Reports

Satellite-based entanglement distribution over 1200 kilometers

(2017) Juan Yin et al.   SCIENCE

2014 Jeffrey M. Hoeg Award Lecture

(2016) Yanfang Peipei Zhu et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters

(2016) Biola M. Javierre et al.   CELL

The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery

(2016) Hendrik G. Stunnenberg et al.   CELL

The Genetics of Transcription Factor DNA Binding Variation

(2016) Bart Deplancke et al.   CELL

Disease variants alter transcription factor levels and methylation of their binding sites

(2016) Marc Jan Bonder et al.   NATURE GENETICS

Molecular control of activation and priming in macrophages

(2016) Christopher K Glass et al.   NATURE IMMUNOLOGY

Epigenetic dynamics of monocyte-to-macrophage differentiation

(2016) Stefan Wallner et al.   Epigenetics & Chromatin

Meta- and Orthogonal Integration of Influenza “OMICs” Data Defines a Role for UBR4 in Virus Budding

(2015) Shashank Tripathi et al.   Cell Host & Microbe

Fitting Linear Mixed-Effects Models Usinglme4

(2015) Douglas Bates et al.   Journal of Statistical Software

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

Whole-genome fingerprint of the DNA methylome during human B cell differentiation

(2015) Marta Kulis et al.   NATURE GENETICS

Long-range epigenetic regulation is conferred by genetic variation located at thousands of independent loci

(2015) Mathieu Lemire et al.   Nature Communications

Role of DNA Methylation in Modulating Transcription Factor Occupancy

(2015) Matthew T. Maurano et al.   Cell Reports

DNA Methylation Landscapes of Human Fetal Development

(2015) Roderick C. Slieker et al.   PLoS Genetics

Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays

(2014) Martin J. Aryee et al.   BIOINFORMATICS

MethylAid: visual and interactive quality control of large Illumina 450k datasets

(2014) M. van Iterson et al.   BIOINFORMATICS

Chromatin state dynamics during blood formation

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

Epigenetic programming of monocyte-to-macrophage differentiation and trained innate immunity

(2014) S. Saeed et al.   SCIENCE

Causal analysis approaches in Ingenuity Pathway Analysis

(2013) Andreas Krämer et al.   BIOINFORMATICS

Charting a dynamic DNA methylation landscape of the human genome

(2013) Michael J. Ziller et al.   NATURE

From promises to practical strategies in epigenetic epidemiology

(2013) Jonathan Mill et al.   NATURE REVIEWS GENETICS

PU.1 target genes undergo Tet2-coupled demethylation and DNMT3b-mediated methylation in monocyte-to-osteoclast differentiation

(2013) Lorenzo de la Rica et al.   GENOME BIOLOGY

Dynamic epigenetic enhancer signatures reveal key transcription factors associated with monocytic differentiation states

(2012) T.-H. Pham et al.   BLOOD

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

ChromHMM: automating chromatin-state discovery and characterization

(2012) Jason Ernst et al.   NATURE METHODS

Functions of DNA methylation: islands, start sites, gene bodies and beyond

(2012) Peter A. Jones   NATURE REVIEWS GENETICS

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