Publications by authors named "Alexander Eckehart Urban"

15Publications

CNN-Peaks: ChIP-Seq peak detection pipeline using convolutional neural networks that imitate human visual inspection.

Authors:
Dongpin Oh J Seth Strattan Junho K Hur José Bento Alexander Eckehart Urban Giltae Song J Michael Cherry

Sci Rep 2020 05 13;10(1):7933. Epub 2020 May 13.

Department of Genetics, Stanford University, Stanford, 94305, USA.

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May 2020

Comprehensive performance comparison of high-resolution array platforms for genome-wide Copy Number Variation (CNV) analysis in humans.

Authors:
Rajini R Haraksingh Alexej Abyzov Alexander Eckehart Urban

BMC Genomics 2017 04 24;18(1):321. Epub 2017 Apr 24.

Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, CA, 94304, USA.

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April 2017

Using iPSCs and genomics to catch CNVs in the act.

Authors:
Alexander Eckehart Urban Carolin Purmann

Nat Genet 2015 Feb;47(2):100-1

Departments of Psychiatry and Behavioral Sciences and the Department of Genetics, Stanford University, Stanford, California, USA.

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February 2015

Somatic copy number mosaicism in human skin revealed by induced pluripotent stem cells.

Authors:
Alexej Abyzov Jessica Mariani Dean Palejev Ying Zhang Michael Seamus Haney Livia Tomasini Anthony F Ferrandino Lior A Rosenberg Belmaker Anna Szekely Michael Wilson Arif Kocabas Nathaniel E Calixto Elena L Grigorenko Anita Huttner Katarzyna Chawarska Sherman Weissman Alexander Eckehart Urban Mark Gerstein Flora M Vaccarino

Nature 2012 Dec 18;492(7429):438-42. Epub 2012 Nov 18.

Program in Neurodevelopment and Regeneration, Yale University, New Haven, Connecticut 06520, USA.

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December 2012

Extensive genetic variation in somatic human tissues.

Authors:
Maeve O'Huallachain Konrad J Karczewski Sherman M Weissman Alexander Eckehart Urban Michael P Snyder

Proc Natl Acad Sci U S A 2012 Oct 5;109(44):18018-23. Epub 2012 Oct 5.

Department of Genetics, Biomedical Informatics Training Program, Stanford University School of Medicine, Stanford, CA 94305, USA.

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October 2012

Mapping copy number variation by population-scale genome sequencing.

Authors:
Ryan E Mills Klaudia Walter Chip Stewart Robert E Handsaker Ken Chen Can Alkan Alexej Abyzov Seungtai Chris Yoon Kai Ye R Keira Cheetham Asif Chinwalla Donald F Conrad Yutao Fu Fabian Grubert Iman Hajirasouliha Fereydoun Hormozdiari Lilia M Iakoucheva Zamin Iqbal Shuli Kang Jeffrey M Kidd Miriam K Konkel Joshua Korn Ekta Khurana Deniz Kural Hugo Y K Lam Jing Leng Ruiqiang Li Yingrui Li Chang-Yun Lin Ruibang Luo Xinmeng Jasmine Mu James Nemesh Heather E Peckham Tobias Rausch Aylwyn Scally Xinghua Shi Michael P Stromberg Adrian M Stütz Alexander Eckehart Urban Jerilyn A Walker Jiantao Wu Yujun Zhang Zhengdong D Zhang Mark A Batzer Li Ding Gabor T Marth Gil McVean Jonathan Sebat Michael Snyder Jun Wang Kenny Ye Evan E Eichler Mark B Gerstein Matthew E Hurles Charles Lee Steven A McCarroll Jan O Korbel

Nature 2011 Feb;470(7332):59-65

Department of Pathology, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts, USA.

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February 2011

Annual Research Review: The promise of stem cell research for neuropsychiatric disorders.

Authors:
Flora M Vaccarino Alexander Eckehart Urban Hanna E Stevens Anna Szekely Alexej Abyzov Elena L Grigorenko Mark Gerstein Sherman Weissman

J Child Psychol Psychiatry 2011 Apr 4;52(4):504-16. Epub 2011 Jan 4.

Child Study Center, Department of Neurobiology, Yale University School of Medicine, New Haven, CT 06520, USA.

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April 2011

The genetic architecture of Down syndrome phenotypes revealed by high-resolution analysis of human segmental trisomies.

Authors:
Jan O Korbel Tal Tirosh-Wagner Alexander Eckehart Urban Xiao-Ning Chen Maya Kasowski Li Dai Fabian Grubert Chandra Erdman Michael C Gao Ken Lange Eric M Sobel Gillian M Barlow Arthur S Aylsworth Nancy J Carpenter Robin Dawn Clark Monika Y Cohen Eric Doran Tzipora Falik-Zaccai Susan O Lewin Ira T Lott Barbara C McGillivray John B Moeschler Mark J Pettenati Siegfried M Pueschel Kathleen W Rao Lisa G Shaffer Mordechai Shohat Alexander J Van Riper Dorothy Warburton Sherman Weissman Mark B Gerstein Michael Snyder Julie R Korenberg

Proc Natl Acad Sci U S A 2009 Jul 13;106(29):12031-6. Epub 2009 Jul 13.

Department of Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, CT 06520, USA.

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July 2009

High-resolution copy-number variation map reflects human olfactory receptor diversity and evolution.

Authors:
Yehudit Hasin Tsviya Olender Miriam Khen Claudia Gonzaga-Jauregui Philip M Kim Alexander Eckehart Urban Michael Snyder Mark B Gerstein Doron Lancet Jan O Korbel

PLoS Genet 2008 Nov 7;4(11):e1000249. Epub 2008 Nov 7.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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November 2008

A procedure for highly specific, sensitive, and unbiased whole-genome amplification.

Authors:
Xinghua Pan Alexander Eckehart Urban Dean Palejev Vincent Schulz Fabian Grubert Yiping Hu Michael Snyder Sherman M Weissman

Proc Natl Acad Sci U S A 2008 Oct 1;105(40):15499-504. Epub 2008 Oct 1.

Department of Genetics, Yale University School of Medicine, New Haven, CT 06520-8005, USA.

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October 2008

MEDME: an experimental and analytical methodology for the estimation of DNA methylation levels based on microarray derived MeDIP-enrichment.

Authors:
Mattia Pelizzola Yasuo Koga Alexander Eckehart Urban Michael Krauthammer Sherman Weissman Ruth Halaban Annette M Molinaro

Genome Res 2008 Oct 2;18(10):1652-9. Epub 2008 Sep 2.

Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, Connecticut 06520, USA.

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October 2008

The current excitement about copy-number variation: how it relates to gene duplications and protein families.

Authors:
Jan O Korbel Philip M Kim Xueying Chen Alexander Eckehart Urban Sherman Weissman Michael Snyder Mark B Gerstein

Curr Opin Struct Biol 2008 Jun 27;18(3):366-74. Epub 2008 May 27.

Molecular Biophysics and Biochemistry Department, Yale University, New Haven, CT 06520, USA.

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June 2008

Paired-end mapping reveals extensive structural variation in the human genome.

Authors:
Jan O Korbel Alexander Eckehart Urban Jason P Affourtit Brian Godwin Fabian Grubert Jan Fredrik Simons Philip M Kim Dean Palejev Nicholas J Carriero Lei Du Bruce E Taillon Zhoutao Chen Andrea Tanzer A C Eugenia Saunders Jianxiang Chi Fengtang Yang Nigel P Carter Matthew E Hurles Sherman M Weissman Timothy T Harkins Mark B Gerstein Michael Egholm Michael Snyder

Science 2007 Oct 27;318(5849):420-6. Epub 2007 Sep 27.

Molecular Biophysics and Biochemistry Department, Yale University, New Haven, CT 06520, USA.

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October 2007

Systematic prediction and validation of breakpoints associated with copy-number variants in the human genome.

Authors:
Jan O Korbel Alexander Eckehart Urban Fabian Grubert Jiang Du Thomas E Royce Peter Starr Guoneng Zhong Beverly S Emanuel Sherman M Weissman Michael Snyder Mark B Gerstein

Proc Natl Acad Sci U S A 2007 Jun 5;104(24):10110-5. Epub 2007 Jun 5.

Departments of Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, CT 06520, USA.

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June 2007

High-resolution mapping of DNA copy alterations in human chromosome 22 using high-density tiling oligonucleotide arrays.

Authors:
Alexander Eckehart Urban Jan O Korbel Rebecca Selzer Todd Richmond April Hacker George V Popescu Joseph F Cubells Roland Green Beverly S Emanuel Mark B Gerstein Sherman M Weissman Michael Snyder

Proc Natl Acad Sci U S A 2006 Mar 14;103(12):4534-9. Epub 2006 Mar 14.

Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT 06520, USA.

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March 2006