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Bo Li et al.
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A Gibbs sampling strategy applied to the mapping of ambiguous short-sequence tags
Jianrong Wang et al.
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HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data
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Sole-Search: an integrated analysis program for peak detection and functional annotation using ChIP-seq data
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JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles
Elodie Portales-Casamar et al.
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The UCSC Genome Browser database: update 2010
Brooke Rhead et al.
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Estimating enrichment of repetitive elements from high-throughput sequence data
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Yong Cheng et al.
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Tohnu Fujiwara et al.
MOLECULAR CELL (2009)
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls
Joel Rozowsky et al.
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Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
Da Wei Huang et al.
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Extracting transcription factor targets from ChIP-Seq data
Geetu Tuteja et al.
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MEME SUITE: tools for motif discovery and searching
Timothy L. Bailey et al.
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Mapping accessible chromatin regions using Sono-Seq
Raymond K. Auerbach et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Genome-wide analysis of SREBP-1 binding in mouse liver chromatin reveals a preference for promoter proximal binding to a new motif
Young-Kyo Seo et al.
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The origins and impact of primate segmental duplications
Tomas Marques-Bonet et al.
TRENDS IN GENETICS (2009)
BioGPS: an extensible and customizable portal for querying and organizing gene annotation resources
Chunlei Wu et al.
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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Ben Langmead et al.
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F-Seq: a feature density estimator for high-throughput sequence tags
Alan P. Boyle et al.
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GeneTrack - a genomic data processing and visualization framework
Istvan Albert et al.
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FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology
Anthony P. Fejes et al.
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Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks
David A. Nix et al.
BMC BIOINFORMATICS (2008)
Evolution of the mammalian transcription factor binding repertoire via transposable elements
Guillaume Bourque et al.
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A rescue strategy for multimapping short sequence tags refines surveys of transcriptional activity by CAGE
Geoffrey J. Faulkner et al.
GENOMICS (2008)
An integrated software system for analyzing ChIP-chip and ChIP-seq data
Hongkai Ji et al.
NATURE BIOTECHNOLOGY (2008)
Design and analysis of ChIP-seq experiments for DNA-binding proteins
Peter V. Kharchenko et al.
NATURE BIOTECHNOLOGY (2008)
Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data
Anton Valouev et al.
NATURE METHODS (2008)
Mapping and quantifying mammalian transcriptomes by RNA-Seq
Ali Mortazavi et al.
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Opinion - Transposable elements and the evolution of regulatory networks
Cedric Feschotte
NATURE REVIEWS GENETICS (2008)
Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data
Raja Jothi et al.
NUCLEIC ACIDS RESEARCH (2008)
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing
Juliane C. Dohm et al.
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Genome-wide B1 retrotransposon binds the transcription factors dioxin receptor and Slug and regulates gene expression in vivo
Angel Carlos Roman et al.
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Model-based Analysis of ChIP-Seq (MACS)
Yong Zhang et al.
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Species-specific endogenous retroviruses shape the transcriptional network of the human tumor suppressor protein p53
Ting Wang et al.
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Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
Tarjei S. Mikkelsen et al.
NATURE (2007)
Genome-wide mapping of in vivo protein-DNA interactions
David S. Johnson et al.
SCIENCE (2007)
High-resolution profiling of histone methylations in the human genome
Artern Barski et al.
CELL (2007)
Primate segmental duplications: crucibles of evolution, diversity and disease
Jeffrey A. Bailey et al.
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Alu elements contain many binding sites for transcription factors and may play a role in regulation of developmental processes
Paz Polak et al.
BMC GENOMICS (2006)
Interchromosomal segmental duplications explain the unusual structure of PRSS3, the gene for an inhibitor-resistant trypsinogen
L Rowen et al.
MOLECULAR BIOLOGY AND EVOLUTION (2005)
Genome-scale identification of nucleosome positions in S-cerevisiae
GC Yuan et al.
SCIENCE (2005)
The influence of CCL3L1 gene-containing segmental duplications on HIV-1/AIDS susceptibility
E Gonzalez et al.
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Repbase update, a database of eukaryotic repetitive elements
J Jurka et al.
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Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs
S Cawley et al.
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Mapping global histone acetylation patterns to gene expression
SK Kurdistani et al.
CELL (2004)
Bioconductor: open software development for computational biology and bioinformatics
RC Gentleman et al.
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Segmental duplications: Organization and impact within the current Human Genome Project assembly
JA Bailey et al.
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Genome-wide location and function of DNA binding proteins
B Ren et al.
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