Literature DB >> 22373907

ChromHMM: automating chromatin-state discovery and characterization.

Jason Ernst, Manolis Kellis.   

Abstract

Mesh:

Year:  2012        PMID: 22373907      PMCID: PMC3577932          DOI: 10.1038/nmeth.1906

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


× No keyword cloud information.
  6 in total

1.  The human genome browser at UCSC.

Authors:  W James Kent; Charles W Sugnet; Terrence S Furey; Krishna M Roskin; Tom H Pringle; Alan M Zahler; David Haussler
Journal:  Genome Res       Date:  2002-06       Impact factor: 9.043

2.  Unsupervised segmentation of continuous genomic data.

Authors:  Nathan Day; Andrew Hemmaplardh; Robert E Thurman; John A Stamatoyannopoulos; William S Noble
Journal:  Bioinformatics       Date:  2007-03-23       Impact factor: 6.937

3.  Identification of functional elements and regulatory circuits by Drosophila modENCODE.

Authors:  Sushmita Roy; Jason Ernst; Peter V Kharchenko; Pouya Kheradpour; Nicolas Negre; Matthew L Eaton; Jane M Landolin; Christopher A Bristow; Lijia Ma; Michael F Lin; Stefan Washietl; Bradley I Arshinoff; Ferhat Ay; Patrick E Meyer; Nicolas Robine; Nicole L Washington; Luisa Di Stefano; Eugene Berezikov; Christopher D Brown; Rogerio Candeias; Joseph W Carlson; Adrian Carr; Irwin Jungreis; Daniel Marbach; Rachel Sealfon; Michael Y Tolstorukov; Sebastian Will; Artyom A Alekseyenko; Carlo Artieri; Benjamin W Booth; Angela N Brooks; Qi Dai; Carrie A Davis; Michael O Duff; Xin Feng; Andrey A Gorchakov; Tingting Gu; Jorja G Henikoff; Philipp Kapranov; Renhua Li; Heather K MacAlpine; John Malone; Aki Minoda; Jared Nordman; Katsutomo Okamura; Marc Perry; Sara K Powell; Nicole C Riddle; Akiko Sakai; Anastasia Samsonova; Jeremy E Sandler; Yuri B Schwartz; Noa Sher; Rebecca Spokony; David Sturgill; Marijke van Baren; Kenneth H Wan; Li Yang; Charles Yu; Elise Feingold; Peter Good; Mark Guyer; Rebecca Lowdon; Kami Ahmad; Justen Andrews; Bonnie Berger; Steven E Brenner; Michael R Brent; Lucy Cherbas; Sarah C R Elgin; Thomas R Gingeras; Robert Grossman; Roger A Hoskins; Thomas C Kaufman; William Kent; Mitzi I Kuroda; Terry Orr-Weaver; Norbert Perrimon; Vincenzo Pirrotta; James W Posakony; Bing Ren; Steven Russell; Peter Cherbas; Brenton R Graveley; Suzanna Lewis; Gos Micklem; Brian Oliver; Peter J Park; Susan E Celniker; Steven Henikoff; Gary H Karpen; Eric C Lai; David M MacAlpine; Lincoln D Stein; Kevin P White; Manolis Kellis
Journal:  Science       Date:  2010-12-22       Impact factor: 47.728

4.  Systematic protein location mapping reveals five principal chromatin types in Drosophila cells.

Authors:  Guillaume J Filion; Joke G van Bemmel; Ulrich Braunschweig; Wendy Talhout; Jop Kind; Lucas D Ward; Wim Brugman; Inês J de Castro; Ron M Kerkhoven; Harmen J Bussemaker; Bas van Steensel
Journal:  Cell       Date:  2010-09-30       Impact factor: 41.582

5.  Discovery and characterization of chromatin states for systematic annotation of the human genome.

Authors:  Jason Ernst; Manolis Kellis
Journal:  Nat Biotechnol       Date:  2010-07-25       Impact factor: 54.908

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

Authors:  Jason Ernst; Pouya Kheradpour; Tarjei S Mikkelsen; Noam Shoresh; Lucas D Ward; Charles B Epstein; Xiaolan Zhang; Li Wang; Robbyn Issner; Michael Coyne; Manching Ku; Timothy Durham; Manolis Kellis; Bradley E Bernstein
Journal:  Nature       Date:  2011-03-23       Impact factor: 49.962

  6 in total
  1005 in total

1.  Scrutinizing the FTO locus: compelling evidence for a complex, long-range regulatory context.

Authors:  Mathias Rask-Andersen; Markus Sällman Almén; Helgi B Schiöth
Journal:  Hum Genet       Date:  2015-09-04       Impact factor: 4.132

Review 2.  Genome architecture: from linear organisation of chromatin to the 3D assembly in the nucleus.

Authors:  Joana Sequeira-Mendes; Crisanto Gutierrez
Journal:  Chromosoma       Date:  2015-09-02       Impact factor: 4.316

3.  Invariant TAD Boundaries Constrain Cell-Type-Specific Looping Interactions between Promoters and Distal Elements around the CFTR Locus.

Authors:  Emily M Smith; Bryan R Lajoie; Gaurav Jain; Job Dekker
Journal:  Am J Hum Genet       Date:  2016-01-07       Impact factor: 11.025

4.  Differential DNA methylation patterns of homeobox genes in proximal and distal colon epithelial cells.

Authors:  Alan Barnicle; Cathal Seoighe; Aaron Golden; John M Greally; Laurence J Egan
Journal:  Physiol Genomics       Date:  2016-01-26       Impact factor: 3.107

5.  Epigenomics of human CD8 T cell differentiation and aging.

Authors:  David M Moskowitz; David W Zhang; Bin Hu; Sabine Le Saux; Rolando E Yanes; Zhongde Ye; Jason D Buenrostro; Cornelia M Weyand; William J Greenleaf; Jörg J Goronzy
Journal:  Sci Immunol       Date:  2017-02-17

6.  Molecular and Neural Functions of Rai1, the Causal Gene for Smith-Magenis Syndrome.

Authors:  Wei-Hsiang Huang; Casey J Guenthner; Jin Xu; Tiffany Nguyen; Lindsay A Schwarz; Alex W Wilkinson; Or Gozani; Howard Y Chang; Mehrdad Shamloo; Liqun Luo
Journal:  Neuron       Date:  2016-09-29       Impact factor: 17.173

7.  Genetic Reduction in Left Ventricular Protein Kinase C-α and Adverse Ventricular Remodeling in Human Subjects.

Authors:  Ray Hu; Michael P Morley; Jeffrey Brandimarto; Nathan R Tucker; Victoria A Parsons; Sihai D Zhao; Benjamin Meder; Hugo A Katus; Frank Rühle; Monika Stoll; Eric Villard; François Cambien; Honghuang Lin; Nicholas L Smith; Janine F Felix; Ramachandran S Vasan; Pim van der Harst; Christopher Newton-Cheh; Jin Li; Cecilia E Kim; Hakon Hakonarson; Sridhar Hannenhalli; Euan A Ashley; Christine S Moravec; W H Wilson Tang; Marjorie Maillet; Jeffery D Molkentin; Patrick T Ellinor; Kenneth B Margulies; Thomas P Cappola
Journal:  Circ Genom Precis Med       Date:  2018-03

8.  Bivalent Chromatin Domains in Glioblastoma Reveal a Subtype-Specific Signature of Glioma Stem Cells.

Authors:  Amelia Weber Hall; Anna M Battenhouse; Haridha Shivram; Adam R Morris; Matthew C Cowperthwaite; Max Shpak; Vishwanath R Iyer
Journal:  Cancer Res       Date:  2018-03-16       Impact factor: 12.701

9.  MED12 Regulates HSC-Specific Enhancers Independently of Mediator Kinase Activity to Control Hematopoiesis.

Authors:  Beatriz Aranda-Orgilles; Ricardo Saldaña-Meyer; Eric Wang; Eirini Trompouki; Anne Fassl; Stephanie Lau; Jasper Mullenders; Pedro P Rocha; Ramya Raviram; María Guillamot; María Sánchez-Díaz; Kun Wang; Clarisse Kayembe; Nan Zhang; Leonela Amoasii; Avik Choudhuri; Jane A Skok; Markus Schober; Danny Reinberg; Piotr Sicinski; Heinrich Schrewe; Aristotelis Tsirigos; Leonard I Zon; Iannis Aifantis
Journal:  Cell Stem Cell       Date:  2016-08-25       Impact factor: 24.633

Review 10.  The epigenome in Alzheimer's disease: current state and approaches for a new path to gene discovery and understanding disease mechanism.

Authors:  Hans-Ulrich Klein; David A Bennett; Philip L De Jager
Journal:  Acta Neuropathol       Date:  2016-08-29       Impact factor: 17.088

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.