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Title
Constructing 3D interaction maps from 1D epigenomes
Authors
Keywords
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Journal
Nature Communications
Volume 7, Issue -, Pages 10812
Publisher
Springer Nature
Online
2016-03-10
DOI
10.1038/ncomms10812
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- (2014) Nastaran Heidari et al. GENOME RESEARCH
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- (2014) Jason A. West et al. MOLECULAR CELL
- An atlas of active enhancers across human cell types and tissues
- (2014) Robin Andersson et al. NATURE
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- (2014) Carlos L. Araya et al. NATURE
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- (2014) John W Whitaker et al. NATURE METHODS
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- (2014) Kristian Jeppsson et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
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- (2013) Jian Yan et al. CELL
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- (2013) Wei Xie et al. CELL
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- (2013) O. Corradin et al. GENOME RESEARCH
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- (2013) T. R. Mercer et al. GENOME RESEARCH
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- (2013) V. C. Seitan et al. GENOME RESEARCH
- The genomic landscape of cohesin-associated chromatin interactions
- (2013) L. E. DeMare et al. GENOME RESEARCH
- MULTI-DOMAIN FEATURE EXTRACTION FOR SMALL EVENT-RELATED POTENTIALS THROUGH NONNEGATIVE MULTI-WAY ARRAY DECOMPOSITION FROM LOW DENSE ARRAY EEG
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- RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State
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- (2012) John L. Rinn et al. Annual Review of Biochemistry
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- (2012) A. J. Faure et al. GENOME RESEARCH
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- (2012) J. Harrow et al. GENOME RESEARCH
- The long-range interaction landscape of gene promoters
- (2012) Amartya Sanyal et al. NATURE
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- (2012) Yin Shen et al. NATURE
- The accessible chromatin landscape of the human genome
- (2012) Robert E. Thurman et al. NATURE
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- The Nucleosome Remodeling Factor
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- A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
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- (2010) Vidisha Tripathi et al. MOLECULAR CELL
- 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
- Transcriptome genetics using second generation sequencing in a Caucasian population
- (2010) Stephen B. Montgomery et al. NATURE
- Understanding mechanisms underlying human gene expression variation with RNA sequencing
- (2010) Joseph K. Pickrell et al. NATURE
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- (2010) Jason Ernst et al. NATURE BIOTECHNOLOGY
- UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions
- (2010) K. Robasky et al. NUCLEIC ACIDS RESEARCH
- 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
- Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes
- (2010) M.-C. Tsai et al. SCIENCE
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- (2010) M. B. Gerstein et al. SCIENCE
- hPDI: a database of experimental human protein-DNA interactions
- (2009) Z. Xie et al. BIOINFORMATICS
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- (2009) Yun Zhu et al. IEEE TRANSACTIONS ON MEDICAL IMAGING
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