An integrated encyclopedia of DNA elements in the human genome

Nature
ENCODE Project Consortium

Abstract

The human genome encodes the blueprint of life, but the function of the vast majority of its nearly three billion bases is unknown. The Encyclopedia of DNA Elements (ENCODE) project has systematically mapped regions of transcription, transcription factor association, chromatin structure and histone modification. These data enabled us to assign biochemical functions for 80% of the genome, in particular outside of the well-studied protein-coding regions. Many discovered candidate regulatory elements are physically associated with one another and with expressed genes, providing new insights into the mechanisms of gene regulation. The newly identified elements also show a statistical correspondence to sequence variants linked to human disease, and can thereby guide interpretation of this variation. Overall, the project provides new insights into the organization and regulation of our genes and genome, and is an expansive resource of functional annotations for biomedical research.

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Feb 18, 2014·American Journal of Respiratory and Critical Care Medicine·Nadia N Hansel, Rasika A Mathias
Aug 2, 2013·Future Oncology·Christina D BaliDimitrios H Roukos
Feb 14, 2014·Biomarkers in Medicine·Aris BechlioulisDimitrios H Roukos
Mar 14, 2014·The New England Journal of Medicine·Benjamin D Solomon
Aug 13, 2013·Pharmacogenomics·Dimitrios H Roukos
Feb 8, 2013·Biomarkers in Medicine·Christos S KatsiosGeorge Baltogiannis
Apr 8, 2014·Genes·David J Elliott
Jan 8, 2014·Acta Biochimica Et Biophysica Sinica·Xin Huang, Jianhong Zuo
Apr 1, 2014·Database : the Journal of Biological Databases and Curation·Sabry RazickPål Sætrom
Jan 15, 2014·Nature Genetics·Lorenzo PasqualiJorge Ferrer
Jan 31, 2014·Science·Benjamin Vernot, Joshua M Akey
Sep 21, 2013·Biomarkers in Medicine·Georgios D LianosDimitrios H Roukos
Jan 3, 2014·The Journal of Clinical Investigation·Peter A Jones
Feb 4, 2014·Genome Medicine·Lisa EversMichael T Barrett
Dec 11, 2013·Nature Reviews. Cardiology·Roos F MarsmanConnie R Bezzina
Oct 26, 2013·Molecular Biology and Evolution·Trees-Juen Chuang, Feng-Chi Chen
Apr 15, 2014·Nature Biotechnology·Jessica SeverinAlistair R R Forrest
Dec 19, 2012·Epigenomics·David Alan YoungMatt John Barter
Mar 15, 2014·Pharmacogenomics·Eva J BrandlDaniel J Müller
Jul 3, 2013·Proceedings of the National Academy of Sciences of the United States of America·Liang Chen
Jul 3, 2013·Proceedings of the National Academy of Sciences of the United States of America·Michael A WhiteBarak A Cohen
Nov 19, 2013·BMC Genomics·Shan ZhongZiv Bar-Joseph
Feb 14, 2014·BMC Genomics·Bharat PanwarGajendra P S Raghava
Mar 13, 2014·Nature Reviews. Genetics·Daria ShlyuevaAlexander Stark
Jul 3, 2013·American Journal of Respiratory and Critical Care Medicine·Martin R WilkinsMark T Gladwin
Nov 30, 2013·Omics : a Journal of Integrative Biology·Mayakannan Manikandan, Arasambattu Kannan Munirajan
Jan 17, 2014·Nature Reviews. Genetics·Michael RonemusMichael Wigler
Oct 11, 2013·Molecular Biology and Evolution·Krishanu MukherjeeBryan Kolaczkowski
Apr 11, 2013·Pharmacogenomics·Marcelo R Luizon, Valeria C Sandrim
Apr 1, 2014·Nature Methods·Jana Marie SchwarzDominik Seelow
Jan 31, 2014·BMC Genomics·Sean R LandmanVipin Kumar
Jul 18, 2014·BMC Systems Biology·Rafael Hernández-de-DiegoAna Conesa
Jul 18, 2014·BMC Systems Biology·Ana Conesa, Ali Mortazavi
Aug 21, 2013·Briefings in Functional Genomics·Elisabeth M Lodder, Connie R Bezzina
Apr 4, 2013·Biomarkers in Medicine·Christos S KatsourasLampros K Michalis
Apr 8, 2014·Genes·Megan J Puckelwartz, Elizabeth M McNally
Feb 4, 2014·Nature Methods·Graham R S RitchiePaul Flicek
Mar 20, 2014·Annual Review of Public Health·Laura S RozekGilbert S Omenn
Jan 18, 2014·Genome Génome / Conseil National De Recherches Canada·Jose E Belizário
Jan 29, 2013·Proceedings of the National Academy of Sciences of the United States of America·Jinfeng ShenHuiqing Zhou
Sep 7, 2013·Stem Cells and Development·Dominique J BarbeauKenichi Tamama
Oct 19, 2013·Cancer Causes & Control : CCC·Melissa H MaddenKathleen M Egan
Dec 3, 2013·Briefings in Functional Genomics·Herman P SpainkRon P Dirks
Mar 5, 2014·Nature Reviews. Genetics·Diego VillarDuncan T Odom
Jan 29, 2014·American Journal of Respiratory and Critical Care Medicine·Joshua M DiamondLung Transplant Outcomes Group
Jan 24, 2013·Proceedings of the National Academy of Sciences of the United States of America·Kousuke HanadaMinami Matsui
Apr 10, 2013·Epigenomics·Xianjun Dong, Zhiping Weng
Apr 10, 2013·Epigenomics·Jerome D Boyd-KirkupJing-Dong J Han
Mar 29, 2014·Nature·Robin AnderssonAlbin Sandelin
Jul 16, 2013·Asian Journal of Andrology·Tao ZhouXue-Jiang Guo
Mar 19, 2014·Briefings in Functional Genomics·Fiona C Wardle, Ferenc Müller
Mar 7, 2014·Nature Structural & Molecular Biology·Edwin Smith, Ali Shilatifard
Mar 29, 2014·BMC Genomics·Yulia A MedvedevaFANTOM Consortium
Mar 13, 2014·The Journal of Clinical Investigation·Ralph StadhoudersEric Soler
Dec 24, 2013·Journal of Molecular Endocrinology·Raffaella Maria Gadaleta, Luca Magnani
May 15, 2013·Bioinformatics·Chandler Zuo, Sündüz Keleş
Mar 9, 2013·Bioscience, Biotechnology, and Biochemistry·Hajime KimuraTakashi Ohyama
Apr 9, 2013·Annual Review of Analytical Chemistry·Elaine R Mardis
May 13, 2014·Genome Biology and Evolution·W Ford DoolittleT Ryan Gregory
Jan 8, 2014·Proceedings of the National Academy of Sciences of the United States of America·Luca PinelloGuo-Cheng Yuan
Jan 10, 2014·Human Molecular Genetics·Simon N StaceyKari Stefansson
Jun 20, 2014·Genome Medicine·Davis J McCarthyPeter Donnelly
Mar 13, 2014·Pflügers Archiv : European journal of physiology·Tim Peters, Blanche Schroen
May 3, 2014·The Journal of Clinical Investigation·Larry D MesnerCharles R Farber
Apr 8, 2014·Nature Protocols·Tim R MercerJohn S Mattick
Apr 9, 2014·Genome Biology·Marc R FriedländerXavier Estivill
Apr 12, 2014·Molecular Autism·Catarina T CorreiaAstrid M Vicente
Jun 2, 2014·Nature Genetics·Catherine A GuentherDavid M Kingsley
Jun 11, 2014·Nature Reviews. Genetics·Michal Levo, Eran Segal
Jan 10, 2014·Proceedings of the National Academy of Sciences of the United States of America·Yarin HadidEviatar Nevo
Mar 25, 2014·Nature Methods·Diane E DickelLen A Pennacchio
Jan 24, 2014·Nucleic Acids Research·Laure FrésardFrédérique Pitel