Literature DB >> 25690851

Epigenomic annotation of genetic variants using the Roadmap Epigenome Browser.

Xin Zhou, Daofeng Li, Bo Zhang, Rebecca F Lowdon, Nicole B Rockweiler, Renee L Sears, Pamela A F Madden, Ivan Smirnov, Joseph F Costello, Ting Wang.   

Abstract

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Year:  2015        PMID: 25690851      PMCID: PMC4467764          DOI: 10.1038/nbt.3158

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN: 1087-0156            Impact factor:   54.908


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  9 in total

Review 1.  Multiple sclerosis.

Authors:  Alastair Compston; Alasdair Coles
Journal:  Lancet       Date:  2002-04-06       Impact factor: 79.321

2.  Exploring long-range genome interactions using the WashU Epigenome Browser.

Authors:  Xin Zhou; Rebecca F Lowdon; Daofeng Li; Heather A Lawson; Pamela A F Madden; Joseph F Costello; Ting Wang
Journal:  Nat Methods       Date:  2013-05       Impact factor: 28.547

3.  The Human Epigenome Browser at Washington University.

Authors:  Xin Zhou; Brett Maricque; Mingchao Xie; Daofeng Li; Vasavi Sundaram; Eric A Martin; Brian C Koebbe; Cydney Nielsen; Martin Hirst; Peggy Farnham; Robert M Kuhn; Jingchun Zhu; Ivan Smirnov; W James Kent; David Haussler; Pamela A F Madden; Joseph F Costello; Ting Wang
Journal:  Nat Methods       Date:  2011-11-29       Impact factor: 28.547

4.  The NIH Roadmap Epigenomics Mapping Consortium.

Authors:  Bradley E Bernstein; John A Stamatoyannopoulos; Joseph F Costello; Bing Ren; Aleksandar Milosavljevic; Alexander Meissner; Manolis Kellis; Marco A Marra; Arthur L Beaudet; Joseph R Ecker; Peggy J Farnham; Martin Hirst; Eric S Lander; Tarjei S Mikkelsen; James A Thomson
Journal:  Nat Biotechnol       Date:  2010-10       Impact factor: 54.908

5.  The NIH Roadmap Epigenomics Program data resource.

Authors:  Lisa Helbling Chadwick
Journal:  Epigenomics       Date:  2012-06       Impact factor: 4.778

6.  Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.

Authors:  Stephen Sawcer; Garrett Hellenthal; Matti Pirinen; Chris C A Spencer; Nikolaos A Patsopoulos; Loukas Moutsianas; Alexander Dilthey; Zhan Su; Colin Freeman; Sarah E Hunt; Sarah Edkins; Emma Gray; David R Booth; Simon C Potter; An Goris; Gavin Band; Annette Bang Oturai; Amy Strange; Janna Saarela; Céline Bellenguez; Bertrand Fontaine; Matthew Gillman; Bernhard Hemmer; Rhian Gwilliam; Frauke Zipp; Alagurevathi Jayakumar; Roland Martin; Stephen Leslie; Stanley Hawkins; Eleni Giannoulatou; Sandra D'alfonso; Hannah Blackburn; Filippo Martinelli Boneschi; Jennifer Liddle; Hanne F Harbo; Marc L Perez; Anne Spurkland; Matthew J Waller; Marcin P Mycko; Michelle Ricketts; Manuel Comabella; Naomi Hammond; Ingrid Kockum; Owen T McCann; Maria Ban; Pamela Whittaker; Anu Kemppinen; Paul Weston; Clive Hawkins; Sara Widaa; John Zajicek; Serge Dronov; Neil Robertson; Suzannah J Bumpstead; Lisa F Barcellos; Rathi Ravindrarajah; Roby Abraham; Lars Alfredsson; Kristin Ardlie; Cristin Aubin; Amie Baker; Katharine Baker; Sergio E Baranzini; Laura Bergamaschi; Roberto Bergamaschi; Allan Bernstein; Achim Berthele; Mike Boggild; Jonathan P Bradfield; David Brassat; Simon A Broadley; Dorothea Buck; Helmut Butzkueven; Ruggero Capra; William M Carroll; Paola Cavalla; Elisabeth G Celius; Sabine Cepok; Rosetta Chiavacci; Françoise Clerget-Darpoux; Katleen Clysters; Giancarlo Comi; Mark Cossburn; Isabelle Cournu-Rebeix; Mathew B Cox; Wendy Cozen; Bruce A C Cree; Anne H Cross; Daniele Cusi; Mark J Daly; Emma Davis; Paul I W de Bakker; Marc Debouverie; Marie Beatrice D'hooghe; Katherine Dixon; Rita Dobosi; Bénédicte Dubois; David Ellinghaus; Irina Elovaara; Federica Esposito; Claire Fontenille; Simon Foote; Andre Franke; Daniela Galimberti; Angelo Ghezzi; Joseph Glessner; Refujia Gomez; Olivier Gout; Colin Graham; Struan F A Grant; Franca Rosa Guerini; Hakon Hakonarson; Per Hall; Anders Hamsten; Hans-Peter Hartung; Rob N Heard; Simon Heath; Jeremy Hobart; Muna Hoshi; Carmen Infante-Duarte; Gillian Ingram; Wendy Ingram; Talat Islam; Maja Jagodic; Michael Kabesch; Allan G Kermode; Trevor J Kilpatrick; Cecilia Kim; Norman Klopp; Keijo Koivisto; Malin Larsson; Mark Lathrop; Jeannette S Lechner-Scott; Maurizio A Leone; Virpi Leppä; Ulrika Liljedahl; Izaura Lima Bomfim; Robin R Lincoln; Jenny Link; Jianjun Liu; Aslaug R Lorentzen; Sara Lupoli; Fabio Macciardi; Thomas Mack; Mark Marriott; Vittorio Martinelli; Deborah Mason; Jacob L McCauley; Frank Mentch; Inger-Lise Mero; Tania Mihalova; Xavier Montalban; John Mottershead; Kjell-Morten Myhr; Paola Naldi; William Ollier; Alison Page; Aarno Palotie; Jean Pelletier; Laura Piccio; Trevor Pickersgill; Fredrik Piehl; Susan Pobywajlo; Hong L Quach; Patricia P Ramsay; Mauri Reunanen; Richard Reynolds; John D Rioux; Mariaemma Rodegher; Sabine Roesner; Justin P Rubio; Ina-Maria Rückert; Marco Salvetti; Erika Salvi; Adam Santaniello; Catherine A Schaefer; Stefan Schreiber; Christian Schulze; Rodney J Scott; Finn Sellebjerg; Krzysztof W Selmaj; David Sexton; Ling Shen; Brigid Simms-Acuna; Sheila Skidmore; Patrick M A Sleiman; Cathrine Smestad; Per Soelberg Sørensen; Helle Bach Søndergaard; Jim Stankovich; Richard C Strange; Anna-Maija Sulonen; Emilie Sundqvist; Ann-Christine Syvänen; Francesca Taddeo; Bruce Taylor; Jenefer M Blackwell; Pentti Tienari; Elvira Bramon; Ayman Tourbah; Matthew A Brown; Ewa Tronczynska; Juan P Casas; Niall Tubridy; Aiden Corvin; Jane Vickery; Janusz Jankowski; Pablo Villoslada; Hugh S Markus; Kai Wang; Christopher G Mathew; James Wason; Colin N A Palmer; H-Erich Wichmann; Robert Plomin; Ernest Willoughby; Anna Rautanen; Juliane Winkelmann; Michael Wittig; Richard C Trembath; Jacqueline Yaouanq; Ananth C Viswanathan; Haitao Zhang; Nicholas W Wood; Rebecca Zuvich; Panos Deloukas; Cordelia Langford; Audrey Duncanson; Jorge R Oksenberg; Margaret A Pericak-Vance; Jonathan L Haines; Tomas Olsson; Jan Hillert; Adrian J Ivinson; Philip L De Jager; Leena Peltonen; Graeme J Stewart; David A Hafler; Stephen L Hauser; Gil McVean; Peter Donnelly; Alastair Compston
Journal:  Nature       Date:  2011-08-10       Impact factor: 49.962

7.  Functional interpretation of non-coding sequence variation: concepts and challenges.

Authors:  Dirk S Paul; Nicole Soranzo; Stephan Beck
Journal:  Bioessays       Date:  2013-12-05       Impact factor: 4.345

8.  Functional annotation of noncoding sequence variants.

Authors:  Graham R S Ritchie; Ian Dunham; Eleftheria Zeggini; Paul Flicek
Journal:  Nat Methods       Date:  2014-02-02       Impact factor: 28.547

9.  An integrated encyclopedia of DNA elements in the human genome.

Authors: 
Journal:  Nature       Date:  2012-09-06       Impact factor: 49.962

  9 in total
  48 in total

1.  Genetic factors define CPO and CLO subtypes of nonsyndromicorofacial cleft.

Authors:  Lulin Huang; Zhonglin Jia; Yi Shi; Qin Du; Jiayu Shi; Ziyan Wang; Yandong Mou; Qingwei Wang; Bihe Zhang; Qing Wang; Shi Ma; He Lin; Shijun Duan; Bin Yin; Yansong Lin; Yiru Wang; Dan Jiang; Fang Hao; Lin Zhang; Haixin Wang; Suyuan Jiang; Huijuan Xu; Chengwei Yang; Chenghao Li; Jingtao Li; Bing Shi; Zhenglin Yang
Journal:  PLoS Genet       Date:  2019-10-14       Impact factor: 5.917

2.  Building a Science Gateway For Processing and Modeling Sequencing Data Via Apache Airavata.

Authors:  Zhong Wang; Marcus A Christie; Eroma Abeysinghe; Tinyi Chu; Suresh Marru; Marlon Pierce; Charles G Danko
Journal:  Pract Exp Adv Res Comput 2018 (2018)       Date:  2018-07

Review 3.  Redefining the biological basis of lineage-ambiguous leukemia through genomics: BCL11B deregulation in acute leukemias of ambiguous lineage.

Authors:  Lindsey E Montefiori; Charles G Mullighan
Journal:  Best Pract Res Clin Haematol       Date:  2021-10-23       Impact factor: 3.020

4.  Monoacylglycerol lipase (MGLL) polymorphism rs604300 interacts with childhood adversity to predict cannabis dependence symptoms and amygdala habituation: Evidence from an endocannabinoid system-level analysis.

Authors:  Caitlin E Carey; Arpana Agrawal; Bo Zhang; Emily D Conley; Louisa Degenhardt; Andrew C Heath; Daofeng Li; Michael T Lynskey; Nicholas G Martin; Grant W Montgomery; Ting Wang; Laura J Bierut; Ahmad R Hariri; Elliot C Nelson; Ryan Bogdan
Journal:  J Abnorm Psychol       Date:  2015-11

Review 5.  Short-Circuiting Gene Regulatory Networks: Origins of B Cell Lymphoma.

Authors:  Olivia I Koues; Eugene M Oltz; Jacqueline E Payton
Journal:  Trends Genet       Date:  2015-10-22       Impact factor: 11.639

6.  EpiCompare: an online tool to define and explore genomic regions with tissue or cell type-specific epigenomic features.

Authors:  Yu He; Ting Wang
Journal:  Bioinformatics       Date:  2017-10-15       Impact factor: 6.937

7.  Genetic variants in anti-Müllerian hormone-related genes and breast cancer risk: results from the AMBER consortium.

Authors:  Hazel B Nichols; Mariaelisa Graff; Jeannette T Bensen; Kathryn L Lunetta; Katie M O'Brien; Melissa A Troester; Lindsay A Williams; Kristin Young; Chi-Chen Hong; Song Yao; Christopher A Haiman; Edward A Ruiz-Narváez; Christine B Ambrosone; Julie R Palmer; Andrew F Olshan
Journal:  Breast Cancer Res Treat       Date:  2020-09-22       Impact factor: 4.872

8.  Integrative analysis of genomic and epigenomic data reveal underlying superenhancer-mediated microRNA regulatory network for human bone mineral density.

Authors:  Wei-Yang Bai; Jiang-Wei Xia; Xiao-Li Rong; Pei-Kuan Cong; Saber Khederzadeh; Hou-Feng Zheng
Journal:  Hum Mol Genet       Date:  2021-11-01       Impact factor: 6.150

9.  Epigenomics and metabolomics reveal the mechanism of the APOA2-saturated fat intake interaction affecting obesity.

Authors:  Chao-Qiang Lai; Caren E Smith; Laurence D Parnell; Yu-Chi Lee; Dolores Corella; Paul Hopkins; Bertha A Hidalgo; Stella Aslibekyan; Michael A Province; Devin Absher; Donna K Arnett; Katherine L Tucker; Jose M Ordovas
Journal:  Am J Clin Nutr       Date:  2018-07-01       Impact factor: 7.045

10.  SIRT1 Gene SNP rs932658 Is Associated With Medication-Related Osteonecrosis of the Jaw.

Authors:  Guang Yang; Joseph M Collins; Roya Rafiee; Sonal Singh; Taimour Langaee; Caitrin W McDonough; L Shannon Holliday; Danxin Wang; Jatinder K Lamba; Young Sick Kim; Gian Andrea Pelliccioni; Mihaly Vaszilko; Janos P Kosa; Bernadett Balla; Peter A Lakatos; Joseph Katz; Jan Moreb; Yan Gong
Journal:  J Bone Miner Res       Date:  2020-10-23       Impact factor: 6.741

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