4.8 Article

An integrated encyclopedia of DNA elements in the human genome

Related references

Note: Only part of the references are listed.
Article Biochemical Research Methods

Unsupervised pattern discovery in human chromatin structure through genomic segmentation

Michael M. Hoffman et al.

NATURE METHODS (2012)

Article Biotechnology & Applied Microbiology

Functional analysis of transcription factor binding sites in human promoters

Troy W. Whitfield et al.

GENOME BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

The GENCODE pseudogene resource

Baikang Pei et al.

GENOME BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

Cell type-specific binding patterns reveal that TCF7L2 can be tethered to the genome by association with GATA3

Seth Frietze et al.

GENOME BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

Analysis of variation at transcription factor binding sites in Drosophila and humans

Mikhail Spivakov et al.

GENOME BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

Modeling gene expression using chromatin features in various cellular contexts

Xianjun Dong et al.

GENOME BIOLOGY (2012)

Article Statistics & Probability

MEASURING REPRODUCIBILITY OF HIGH-THROUGHPUT EXPERIMENTS

Qunhua Li et al.

ANNALS OF APPLIED STATISTICS (2011)

Article Biochemistry & Molecular Biology

High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells

Alan P. Boyle et al.

GENOME RESEARCH (2011)

Article Biochemistry & Molecular Biology

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

Roger Pique-Regi et al.

GENOME RESEARCH (2011)

Review Biochemistry & Molecular Biology

What fraction of the human genome is functional?

Chris P. Ponting et al.

GENOME RESEARCH (2011)

Article Biochemistry & Molecular Biology

AlleleSeq: analysis of allele-specific expression and binding in a network framework

Joel Rozowsky et al.

MOLECULAR SYSTEMS BIOLOGY (2011)

Article Multidisciplinary Sciences

A high-resolution map of human evolutionary constraint using 29 mammals

Kerstin Lindblad-Toh et al.

NATURE (2011)

Article Multidisciplinary Sciences

Determinants of nucleosome organization in primary human cells

Anton Valouev et al.

NATURE (2011)

Article Multidisciplinary Sciences

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

Jason Ernst et al.

NATURE (2011)

Review Genetics & Heredity

Charting histone modifications and the functional organization of mammalian genomes

Vicky W. Zhou et al.

NATURE REVIEWS GENETICS (2011)

Article Biochemistry & Molecular Biology

Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters

Frederic Koch et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2011)

Article Biochemistry & Molecular Biology

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

Richard M. Myers et al.

PLOS BIOLOGY (2011)

Article Statistics & Probability

SUBSAMPLING METHODS FOR GENOMIC INFERENCE

Peter J. Bickel et al.

ANNALS OF APPLIED STATISTICS (2010)

Article Multidisciplinary Sciences

Complete Khoisan and Bantu genomes from southern Africa

Stephan C. Schuster et al.

NATURE (2010)

Article Multidisciplinary Sciences

A map of human genome variation from population-scale sequencing

David Altshuler et al.

NATURE (2010)

Article Biotechnology & Applied Microbiology

GREAT improves functional interpretation of cis-regulatory regions

Cory Y. McLean et al.

NATURE BIOTECHNOLOGY (2010)

Article Biochemistry & Molecular Biology

Reciprocal intronic and exonic histone modification regions in humans

Jason T. Huff et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2010)

Article Multidisciplinary Sciences

ZNF274 Recruits the Histone Methyltransferase SETDB1 to the 3′ Ends of ZNF Genes

Seth Frietze et al.

PLOS ONE (2010)

Article Multidisciplinary Sciences

Five-Vertebrate ChIP-seq Reveals the Evolutionary Dynamics of Transcription Factor Binding

Dominic Schmidt et al.

SCIENCE (2010)

Review Biochemistry & Molecular Biology

Predictive chromatin signatures in the mammalian genome

Gary C. Hon et al.

HUMAN MOLECULAR GENETICS (2009)

Article Multidisciplinary Sciences

An oestrogen-receptor-α-bound human chromatin interactome

Melissa J. Fullwood et al.

NATURE (2009)

Article Multidisciplinary Sciences

Human DNA methylomes at base resolution show widespread epigenomic differences

Ryan Lister et al.

NATURE (2009)

Article Biotechnology & Applied Microbiology

Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

Madeleine P. Ball et al.

NATURE BIOTECHNOLOGY (2009)

Article Biochemical Research Methods

Global mapping of protein-DNA interactions in vivo by digital genomic footprinting

Jay R. Hesselberth et al.

NATURE METHODS (2009)

Letter Biochemical Research Methods

My5C: web tools for chromosome conformation capture studies

Bryan R. Lajoie et al.

NATURE METHODS (2009)

Article Biochemistry & Molecular Biology

Primary sequence and epigenetic determinants of in vivo occupancy of genomic DNA by GATA1

Ying Zhang et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Multidisciplinary Sciences

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

Lucia A. Hindorff et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Multidisciplinary Sciences

Local DNA Topography Correlates with Functional Noncoding Regions of the Human Genome

Stephen C. J. Parker et al.

SCIENCE (2009)

Article Biochemical Research Methods

Discovery and Annotation of Functional Chromatin Signatures in the Human Genome

Gary Hon et al.

PLOS COMPUTATIONAL BIOLOGY (2009)

Article Biochemistry & Molecular Biology

Dynamic regulation of nucleosome positioning in the human genome

Dustin E. Schones et al.

Editorial Material Multidisciplinary Sciences

Gene regulation in the third dimension

Job Dekker

SCIENCE (2008)

Article Biotechnology & Applied Microbiology

Model-based Analysis of ChIP-Seq (MACS)

Yong Zhang et al.

GENOME BIOLOGY (2008)

Article Multidisciplinary Sciences

Divergence of transcription factor binding sites across related yeast species

Anthony R. Borneman et al.

SCIENCE (2007)

Article Multidisciplinary Sciences

Widely distributed noncoding purifying selection in the human genome

Saurabh Asthana et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Multidisciplinary Sciences

RNA maps reveal new RNA classes and a possible function for pervasive transcription

Philipp Kapranov et al.

SCIENCE (2007)

Review Genetics & Heredity

Mammalian RNA polymerase II core promoters: insights from genome-wide studies

Albin Sandelin et al.

NATURE REVIEWS GENETICS (2007)

Review Biochemistry & Molecular Biology

Chromatin modifications and their function

Tony Kouzarides

Review Biochemistry & Molecular Biology

The role of chromatin during transcription

Bing Li et al.

Review Biochemistry & Molecular Biology

Raising the estimate of functional human sequences

Michael Pheasant et al.

GENOME RESEARCH (2007)

Article Biochemistry & Molecular Biology

Distribution and intensity of constraint in mammalian genomic sequence

GM Cooper et al.

GENOME RESEARCH (2005)

Article Biochemistry & Molecular Biology

Chromatin remodeling as a guide to transcriptional regulatory networks in mammals

FD Urnov

JOURNAL OF CELLULAR BIOCHEMISTRY (2003)

Article Biochemistry & Molecular Biology

The share of human genomic DNA under selection estimated from human-mouse genomic alignments

F Chiaromonte et al.

COLD SPRING HARBOR SYMPOSIA ON QUANTITATIVE BIOLOGY (2003)

Review Multidisciplinary Sciences

Initial sequencing and comparative analysis of the mouse genome

RH Waterston et al.

NATURE (2002)