Literature DB >> 25164742

Genomics: Hiding in plain sight.

Felix Muerdter1, Alexander Stark1.   

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Year:  2014        PMID: 25164742     DOI: 10.1038/512374a

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


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  20 in total

1.  GREAT improves functional interpretation of cis-regulatory regions.

Authors:  Cory Y McLean; Dave Bristor; Michael Hiller; Shoa L Clarke; Bruce T Schaar; Craig B Lowe; Aaron M Wenger; Gill Bejerano
Journal:  Nat Biotechnol       Date:  2010-05-02       Impact factor: 54.908

2.  Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project.

Authors:  Mark B Gerstein; Zhi John Lu; Eric L Van Nostrand; Chao Cheng; Bradley I Arshinoff; Tao Liu; Kevin Y Yip; Rebecca Robilotto; Andreas Rechtsteiner; Kohta Ikegami; Pedro Alves; Aurelien Chateigner; Marc Perry; Mitzi Morris; Raymond K Auerbach; Xin Feng; Jing Leng; Anne Vielle; Wei Niu; Kahn Rhrissorrakrai; Ashish Agarwal; Roger P Alexander; Galt Barber; Cathleen M Brdlik; Jennifer Brennan; Jeremy Jean Brouillet; Adrian Carr; Ming-Sin Cheung; Hiram Clawson; Sergio Contrino; Luke O Dannenberg; Abby F Dernburg; Arshad Desai; Lindsay Dick; Andréa C Dosé; Jiang Du; Thea Egelhofer; Sevinc Ercan; Ghia Euskirchen; Brent Ewing; Elise A Feingold; Reto Gassmann; Peter J Good; Phil Green; Francois Gullier; Michelle Gutwein; Mark S Guyer; Lukas Habegger; Ting Han; Jorja G Henikoff; Stefan R Henz; Angie Hinrichs; Heather Holster; Tony Hyman; A Leo Iniguez; Judith Janette; Morten Jensen; Masaomi Kato; W James Kent; Ellen Kephart; Vishal Khivansara; Ekta Khurana; John K Kim; Paulina Kolasinska-Zwierz; Eric C Lai; Isabel Latorre; Amber Leahey; Suzanna Lewis; Paul Lloyd; Lucas Lochovsky; Rebecca F Lowdon; Yaniv Lubling; Rachel Lyne; Michael MacCoss; Sebastian D Mackowiak; Marco Mangone; Sheldon McKay; Desirea Mecenas; Gennifer Merrihew; David M Miller; Andrew Muroyama; John I Murray; Siew-Loon Ooi; Hoang Pham; Taryn Phippen; Elicia A Preston; Nikolaus Rajewsky; Gunnar Rätsch; Heidi Rosenbaum; Joel Rozowsky; Kim Rutherford; Peter Ruzanov; Mihail Sarov; Rajkumar Sasidharan; Andrea Sboner; Paul Scheid; Eran Segal; Hyunjin Shin; Chong Shou; Frank J Slack; Cindie Slightam; Richard Smith; William C Spencer; E O Stinson; Scott Taing; Teruaki Takasaki; Dionne Vafeados; Ksenia Voronina; Guilin Wang; Nicole L Washington; Christina M Whittle; Beijing Wu; Koon-Kiu Yan; Georg Zeller; Zheng Zha; Mei Zhong; Xingliang Zhou; Julie Ahringer; Susan Strome; Kristin C Gunsalus; Gos Micklem; X Shirley Liu; Valerie Reinke; Stuart K Kim; LaDeana W Hillier; Steven Henikoff; Fabio Piano; Michael Snyder; Lincoln Stein; Jason D Lieb; Robert H Waterston
Journal:  Science       Date:  2010-12-22       Impact factor: 47.728

3.  HOT regions function as patterned developmental enhancers and have a distinct cis-regulatory signature.

Authors:  Evgeny Z Kvon; Gerald Stampfel; J Omar Yáñez-Cuna; Barry J Dickson; Alexander Stark
Journal:  Genes Dev       Date:  2012-04-12       Impact factor: 11.361

4.  i-cisTarget: an integrative genomics method for the prediction of regulatory features and cis-regulatory modules.

Authors:  Carl Herrmann; Bram Van de Sande; Delphine Potier; Stein Aerts
Journal:  Nucleic Acids Res       Date:  2012-06-20       Impact factor: 16.971

5.  WormBase 2012: more genomes, more data, new website.

Authors:  Karen Yook; Todd W Harris; Tamberlyn Bieri; Abigail Cabunoc; Juancarlos Chan; Wen J Chen; Paul Davis; Norie de la Cruz; Adrian Duong; Ruihua Fang; Uma Ganesan; Christian Grove; Kevin Howe; Snehalata Kadam; Ranjana Kishore; Raymond Lee; Yuling Li; Hans-Michael Muller; Cecilia Nakamura; Bill Nash; Philip Ozersky; Michael Paulini; Daniela Raciti; Arun Rangarajan; Gary Schindelman; Xiaoqi Shi; Erich M Schwarz; Mary Ann Tuli; Kimberly Van Auken; Daniel Wang; Xiaodong Wang; Gary Williams; Jonathan Hodgkin; Matthew Berriman; Richard Durbin; Paul Kersey; John Spieth; Lincoln Stein; Paul W Sternberg
Journal:  Nucleic Acids Res       Date:  2011-11-08       Impact factor: 16.971

6.  High-throughput functional testing of ENCODE segmentation predictions.

Authors:  Jamie C Kwasnieski; Christopher Fiore; Hemangi G Chaudhari; Barak A Cohen
Journal:  Genome Res       Date:  2014-07-17       Impact factor: 9.043

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

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

8.  Regulatory analysis of the C. elegans genome with spatiotemporal resolution.

Authors:  Carlos L Araya; Trupti Kawli; Anshul Kundaje; Lixia Jiang; Beijing Wu; Dionne Vafeados; Robert Terrell; Peter Weissdepp; Louis Gevirtzman; Daniel Mace; Wei Niu; Alan P Boyle; Dan Xie; Lijia Ma; John I Murray; Valerie Reinke; Robert H Waterston; Michael Snyder
Journal:  Nature       Date:  2014-08-28       Impact factor: 49.962

9.  FlyBase 102--advanced approaches to interrogating FlyBase.

Authors:  Susan E St Pierre; Laura Ponting; Raymund Stefancsik; Peter McQuilton
Journal:  Nucleic Acids Res       Date:  2013-11-13       Impact factor: 16.971

10.  Comparative analysis of regulatory information and circuits across distant species.

Authors:  Alan P Boyle; Carlos L Araya; Cathleen Brdlik; Philip Cayting; Chao Cheng; Yong Cheng; Kathryn Gardner; LaDeana W Hillier; Judith Janette; Lixia Jiang; Dionna Kasper; Trupti Kawli; Pouya Kheradpour; Anshul Kundaje; Jingyi Jessica Li; Lijia Ma; Wei Niu; E Jay Rehm; Joel Rozowsky; Matthew Slattery; Rebecca Spokony; Robert Terrell; Dionne Vafeados; Daifeng Wang; Peter Weisdepp; Yi-Chieh Wu; Dan Xie; Koon-Kiu Yan; Elise A Feingold; Peter J Good; Michael J Pazin; Haiyan Huang; Peter J Bickel; Steven E Brenner; Valerie Reinke; Robert H Waterston; Mark Gerstein; Kevin P White; Manolis Kellis; Michael Snyder
Journal:  Nature       Date:  2014-08-28       Impact factor: 49.962

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  1 in total

Review 1.  Asparaginase treatment side-effects may be due to genes with homopolymeric Asn codons (Review-Hypothesis).

Authors:  Julian Banerji
Journal:  Int J Mol Med       Date:  2015-07-15       Impact factor: 4.101

  1 in total

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