Literature DB >> 23040498

Illuminating potential technical artifacts of DNA-methylation array probes.

John D Blair, E Magda Price.   

Abstract

Mesh:

Year:  2012        PMID: 23040498      PMCID: PMC3484642          DOI: 10.1016/j.ajhg.2012.05.028

Source DB:  PubMed          Journal:  Am J Hum Genet        ISSN: 0002-9297            Impact factor:   11.025


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  8 in total

1.  Sequence overlap between autosomal and sex-linked probes on the Illumina HumanMethylation27 microarray.

Authors:  Yi-an Chen; Sanaa Choufani; Jose Carlos Ferreira; Daria Grafodatskaya; Darci T Butcher; Rosanna Weksberg
Journal:  Genomics       Date:  2011-01-04       Impact factor: 5.736

2.  DNA methylation signatures in development and aging of the human prefrontal cortex.

Authors:  Shusuke Numata; Tianzhang Ye; Thomas M Hyde; Xavier Guitart-Navarro; Ran Tao; Michael Wininger; Carlo Colantuoni; Daniel R Weinberger; Joel E Kleinman; Barbara K Lipska
Journal:  Am J Hum Genet       Date:  2012-02-02       Impact factor: 11.025

3.  Gene body-specific methylation on the active X chromosome.

Authors:  Asaf Hellman; Andrew Chess
Journal:  Science       Date:  2007-02-23       Impact factor: 47.728

4.  Genome-wide DNA methylation profiling using Infinium® assay.

Authors:  Marina Bibikova; Jennie Le; Bret Barnes; Shadi Saedinia-Melnyk; Lixin Zhou; Richard Shen; Kevin L Gunderson
Journal:  Epigenomics       Date:  2009-10       Impact factor: 4.778

5.  Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.

Authors:  Ewan Birney; John A Stamatoyannopoulos; Anindya Dutta; Roderic Guigó; Thomas R Gingeras; Elliott H Margulies; Zhiping Weng; Michael Snyder; Emmanouil T Dermitzakis; Robert E Thurman; Michael S Kuehn; Christopher M Taylor; Shane Neph; Christoph M Koch; Saurabh Asthana; Ankit Malhotra; Ivan Adzhubei; Jason A Greenbaum; Robert M Andrews; Paul Flicek; Patrick J Boyle; Hua Cao; Nigel P Carter; Gayle K Clelland; Sean Davis; Nathan Day; Pawandeep Dhami; Shane C Dillon; Michael O Dorschner; Heike Fiegler; Paul G Giresi; Jeff Goldy; Michael Hawrylycz; Andrew Haydock; Richard Humbert; Keith D James; Brett E Johnson; Ericka M Johnson; Tristan T Frum; Elizabeth R Rosenzweig; Neerja Karnani; Kirsten Lee; Gregory C Lefebvre; Patrick A Navas; Fidencio Neri; Stephen C J Parker; Peter J Sabo; Richard Sandstrom; Anthony Shafer; David Vetrie; Molly Weaver; Sarah Wilcox; Man Yu; Francis S Collins; Job Dekker; Jason D Lieb; Thomas D Tullius; Gregory E Crawford; Shamil Sunyaev; William S Noble; Ian Dunham; France Denoeud; Alexandre Reymond; Philipp Kapranov; Joel Rozowsky; Deyou Zheng; Robert Castelo; Adam Frankish; Jennifer Harrow; Srinka Ghosh; Albin Sandelin; Ivo L Hofacker; Robert Baertsch; Damian Keefe; Sujit Dike; Jill Cheng; Heather A Hirsch; Edward A Sekinger; Julien Lagarde; Josep F Abril; Atif Shahab; Christoph Flamm; Claudia Fried; Jörg Hackermüller; Jana Hertel; Manja Lindemeyer; Kristin Missal; Andrea Tanzer; Stefan Washietl; Jan Korbel; Olof Emanuelsson; Jakob S Pedersen; Nancy Holroyd; Ruth Taylor; David Swarbreck; Nicholas Matthews; Mark C Dickson; Daryl J Thomas; Matthew T Weirauch; James Gilbert; Jorg Drenkow; Ian Bell; XiaoDong Zhao; K G Srinivasan; Wing-Kin Sung; Hong Sain Ooi; Kuo Ping Chiu; Sylvain Foissac; Tyler Alioto; Michael Brent; Lior Pachter; Michael L Tress; Alfonso Valencia; Siew Woh Choo; Chiou Yu Choo; Catherine Ucla; Caroline Manzano; Carine Wyss; Evelyn Cheung; Taane G Clark; James B Brown; Madhavan Ganesh; Sandeep Patel; Hari Tammana; Jacqueline Chrast; Charlotte N Henrichsen; Chikatoshi Kai; Jun Kawai; Ugrappa Nagalakshmi; Jiaqian Wu; Zheng Lian; Jin Lian; Peter Newburger; Xueqing Zhang; Peter Bickel; John S Mattick; Piero Carninci; Yoshihide Hayashizaki; Sherman Weissman; Tim Hubbard; Richard M Myers; Jane Rogers; Peter F Stadler; Todd M Lowe; Chia-Lin Wei; Yijun Ruan; Kevin Struhl; Mark Gerstein; Stylianos E Antonarakis; Yutao Fu; Eric D Green; Ulaş Karaöz; Adam Siepel; James Taylor; Laura A Liefer; Kris A Wetterstrand; Peter J Good; Elise A Feingold; Mark S Guyer; Gregory M Cooper; George Asimenos; Colin N Dewey; Minmei Hou; Sergey Nikolaev; Juan I Montoya-Burgos; Ari Löytynoja; Simon Whelan; Fabio Pardi; Tim Massingham; Haiyan Huang; Nancy R Zhang; Ian Holmes; James C Mullikin; Abel Ureta-Vidal; Benedict Paten; Michael Seringhaus; Deanna Church; Kate Rosenbloom; W James Kent; Eric A Stone; Serafim Batzoglou; Nick Goldman; Ross C Hardison; David Haussler; Webb Miller; Arend Sidow; Nathan D Trinklein; Zhengdong D Zhang; Leah Barrera; Rhona Stuart; David C King; Adam Ameur; Stefan Enroth; Mark C Bieda; Jonghwan Kim; Akshay A Bhinge; Nan Jiang; Jun Liu; Fei Yao; Vinsensius B Vega; Charlie W H Lee; Patrick Ng; Atif Shahab; Annie Yang; Zarmik Moqtaderi; Zhou Zhu; Xiaoqin Xu; Sharon Squazzo; Matthew J Oberley; David Inman; Michael A Singer; Todd A Richmond; Kyle J Munn; Alvaro Rada-Iglesias; Ola Wallerman; Jan Komorowski; Joanna C Fowler; Phillippe Couttet; Alexander W Bruce; Oliver M Dovey; Peter D Ellis; Cordelia F Langford; David A Nix; Ghia Euskirchen; Stephen Hartman; Alexander E Urban; Peter Kraus; Sara Van Calcar; Nate Heintzman; Tae Hoon Kim; Kun Wang; Chunxu Qu; Gary Hon; Rosa Luna; Christopher K Glass; M Geoff Rosenfeld; Shelley Force Aldred; Sara J Cooper; Anason Halees; Jane M Lin; Hennady P Shulha; Xiaoling Zhang; Mousheng Xu; Jaafar N S Haidar; Yong Yu; Yijun Ruan; Vishwanath R Iyer; Roland D Green; Claes Wadelius; Peggy J Farnham; Bing Ren; Rachel A Harte; Angie S Hinrichs; Heather Trumbower; Hiram Clawson; Jennifer Hillman-Jackson; Ann S Zweig; Kayla Smith; Archana Thakkapallayil; Galt Barber; Robert M Kuhn; Donna Karolchik; Lluis Armengol; Christine P Bird; Paul I W de Bakker; Andrew D Kern; Nuria Lopez-Bigas; Joel D Martin; Barbara E Stranger; Abigail Woodroffe; Eugene Davydov; Antigone Dimas; Eduardo Eyras; Ingileif B Hallgrímsdóttir; Julian Huppert; Michael C Zody; Gonçalo R Abecasis; Xavier Estivill; Gerard G Bouffard; Xiaobin Guan; Nancy F Hansen; Jacquelyn R Idol; Valerie V B Maduro; Baishali Maskeri; Jennifer C McDowell; Morgan Park; Pamela J Thomas; Alice C Young; Robert W Blakesley; Donna M Muzny; Erica Sodergren; David A Wheeler; Kim C Worley; Huaiyang Jiang; George M Weinstock; Richard A Gibbs; Tina Graves; Robert Fulton; Elaine R Mardis; Richard K Wilson; Michele Clamp; James Cuff; Sante Gnerre; David B Jaffe; Jean L Chang; Kerstin Lindblad-Toh; Eric S Lander; Maxim Koriabine; Mikhail Nefedov; Kazutoyo Osoegawa; Yuko Yoshinaga; Baoli Zhu; Pieter J de Jong
Journal:  Nature       Date:  2007-06-14       Impact factor: 49.962

6.  Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain.

Authors:  J Raphael Gibbs; Marcel P van der Brug; Dena G Hernandez; Bryan J Traynor; Michael A Nalls; Shiao-Lin Lai; Sampath Arepalli; Allissa Dillman; Ian P Rafferty; Juan Troncoso; Robert Johnson; H Ronald Zielke; Luigi Ferrucci; Dan L Longo; Mark R Cookson; Andrew B Singleton
Journal:  PLoS Genet       Date:  2010-05-13       Impact factor: 5.917

7.  A study of the influence of sex on genome wide methylation.

Authors:  Jingyu Liu; Marilee Morgan; Kent Hutchison; Vince D Calhoun
Journal:  PLoS One       Date:  2010-04-06       Impact factor: 3.240

8.  Chromosome-wide DNA methylation analysis predicts human tissue-specific X inactivation.

Authors:  Allison M Cotton; Lucia Lam; Joslynn G Affleck; Ian M Wilson; Maria S Peñaherrera; Deborah E McFadden; Michael S Kobor; Wan L Lam; Wendy P Robinson; Carolyn J Brown
Journal:  Hum Genet       Date:  2011-05-20       Impact factor: 4.132

  8 in total
  12 in total

1.  FOXA1 hypermethylation: link between parity and ER-negative breast cancer in African American women?

Authors:  Allyson C Espinal; Matthew F Buas; Dan Wang; David Ting-Yuan Cheng; Lara Sucheston-Campbell; Qiang Hu; Li Yan; Rochelle Payne-Ondracek; Eduardo Cortes; Li Tang; Zhihong Gong; Gary Zirpoli; Thaer Khoury; Song Yao; Angela Omilian; Kitaw Demissie; Elisa V Bandera; Song Liu; Christine B Ambrosone; Michael J Higgins
Journal:  Breast Cancer Res Treat       Date:  2017-07-29       Impact factor: 4.872

2.  Improved reporting of DNA methylation data derived from studies of the human placenta.

Authors:  Kirsten Hogg; E Magda Price; Wendy P Robinson
Journal:  Epigenetics       Date:  2014-01-06       Impact factor: 4.528

3.  Hypoxia alters the epigenetic profile in cultured human placental trophoblasts.

Authors:  Ryan K C Yuen; Baosheng Chen; John D Blair; Wendy P Robinson; D Michael Nelson
Journal:  Epigenetics       Date:  2013-01-11       Impact factor: 4.528

4.  DNA methylation abnormalities in congenital heart disease.

Authors:  Clara Serra-Juhé; Ivon Cuscó; Aïda Homs; Raquel Flores; Núria Torán; Luis A Pérez-Jurado
Journal:  Epigenetics       Date:  2015       Impact factor: 4.528

5.  Erasure and reestablishment of random allelic expression imbalance after epigenetic reprogramming.

Authors:  Aaron Richard Jeffries; Dafe Aghogho Uwanogho; Graham Cocks; Leo William Perfect; Emma Dempster; Jonathan Mill; Jack Price
Journal:  RNA       Date:  2016-08-18       Impact factor: 4.942

6.  Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array.

Authors:  Magda E Price; Allison M Cotton; Lucia L Lam; Pau Farré; Eldon Emberly; Carolyn J Brown; Wendy P Robinson; Michael S Kobor
Journal:  Epigenetics Chromatin       Date:  2013-03-03       Impact factor: 4.954

7.  FastDMA: an infinium humanmethylation450 beadchip analyzer.

Authors:  Dingming Wu; Jin Gu; Michael Q Zhang
Journal:  PLoS One       Date:  2013-09-05       Impact factor: 3.240

8.  Genome-wide methylation patterns provide insight into differences in breast tumor biology between American women of African and European ancestry.

Authors:  Christine B Ambrosone; Allyson C Young; Lara E Sucheston; Dan Wang; Li Yan; Song Liu; Li Tang; Qiang Hu; Jo L Freudenheim; Peter G Shields; Carl D Morrison; Kitaw Demissie; Michael J Higgins
Journal:  Oncotarget       Date:  2014-01-15

9.  Variation in 5-hydroxymethylcytosine across human cortex and cerebellum.

Authors:  Katie Lunnon; Eilis Hannon; Rebecca G Smith; Emma Dempster; Chloe Wong; Joe Burrage; Claire Troakes; Safa Al-Sarraj; Agnieszka Kepa; Leonard Schalkwyk; Jonathan Mill
Journal:  Genome Biol       Date:  2016-02-16       Impact factor: 13.583

10.  A cross-cohort analysis of autosomal DNA methylation sex differences in the term placenta.

Authors:  Amy M Inkster; Victor Yuan; Chaini Konwar; Allison M Matthews; Carolyn J Brown; Wendy P Robinson
Journal:  Biol Sex Differ       Date:  2021-05-27       Impact factor: 5.027

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