Improved nucleosome-positioning algorithm iNPS for accurate nucleosome positioning from sequencing data

NucleoFinder: a statistical approach for the detection of nucleosome positions

(2013) J. Becker et al.   BIOINFORMATICS

Mapping Human Epigenomes

(2013) Chloe M. Rivera et al.   CELL

CoCiter: An Efficient Tool to Infer Gene Function by Assessing the Significance of Literature Co-Citation

(2013) Nan Qiao et al.   PLoS One

A Compendium of Nucleosome and Transcript Profiles Reveals Determinants of Chromatin Architecture and Transcription

(2013) Harm van Bakel et al.   PLoS Genetics

NORMAL: accurate nucleosome positioning using a modified Gaussian mixture model

(2012) A. Polishko et al.   BIOINFORMATICS

VEGF directly suppresses activation of T cells from ascites secondary to ovarian cancer via VEGF receptor type 2

(2012) N G Gavalas et al.   BRITISH JOURNAL OF CANCER

DANPOS: Dynamic analysis of nucleosome position and occupancy by sequencing

(2012) K. Chen et al.   GENOME RESEARCH

LKB1 and AMPK: central regulators of lymphocyte metabolism and function

(2012) Julianna Blagih et al.   IMMUNOLOGICAL REVIEWS

Probabilistic Inference for Nucleosome Positioning with MNase-Based or Sonicated Short-Read Data

(2012) Xuekui Zhang et al.   PLoS One

nucleR: a package for non-parametric nucleosome positioning

(2011) O. Flores et al.   BIOINFORMATICS

Regulation of nucleosome landscape and transcription factor targeting at tissue-specific enhancers by BRG1

(2011) G. Hu et al.   GENOME RESEARCH

The Liver Kinase B1 Is a Central Regulator of T Cell Development, Activation, and Metabolism

(2011) Nancie J. MacIver et al.   JOURNAL OF IMMUNOLOGY

Determinants and dynamics of genome accessibility

(2011) Oliver Bell et al.   NATURE REVIEWS GENETICS

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

(2010) R. Pique-Regi et al.   GENOME RESEARCH

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

Nucleosome-mediated cooperativity between transcription factors

(2010) L. A. Mirny   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Important role of interleukin-3 in the early phase of collagen-induced arthritis

(2009) Hilke Brühl et al.   ARTHRITIS AND RHEUMATISM

H2A.Z-Containing Nucleosomes Mediate the Thermosensory Response in Arabidopsis

(2009) S. Vinod Kumar et al.   CELL

LKB1 is essential for the proliferation of T-cell progenitors and mature peripheral T cells

(2009) Peter Tamás et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

High-resolution nucleosome mapping reveals transcription-dependent promoter packaging

(2009) A. Weiner et al.   GENOME RESEARCH

H3.3/H2A.Z double variant–containing nucleosomes mark 'nucleosome-free regions' of active promoters and other regulatory regions

(2009) Chunyuan Jin et al.   NATURE GENETICS

A novel modifier of regulatory T cells

(2009) Naganari Ohkura et al.   NATURE IMMUNOLOGY

The receptor S1P1 overrides regulatory T cell–mediated immune suppression through Akt-mTOR

(2009) Guangwei Liu et al.   NATURE IMMUNOLOGY

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

A compiled and systematic reference map of nucleosome positions across the Saccharomyces cerevisiae genome

(2009) Cizhong Jiang et al.   GENOME BIOLOGY

Identifying Positioned Nucleosomes with Epigenetic Marks in Human from ChIP-Seq

(2008) Yong Zhang et al.   BMC GENOMICS

Dynamic Regulation of Nucleosome Positioning in the Human Genome

(2008) Dustin E. Schones et al.   CELL

Syndecan-2 and -4 expressed on activated primary human CD4+ lymphocytes can regulate T cell activation

(2008) Trini Teixé et al.   MOLECULAR IMMUNOLOGY

Nucleosome organization in the Drosophila genome

(2008) Travis N. Mavrich et al.   NATURE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY

Nucleosome destabilization in the epigenetic regulation of gene expression

(2007) Steven Henikoff   NATURE REVIEWS GENETICS