Publications by authors named "Chunlin Xiao"

19Publications

A diploid assembly-based benchmark for variants in the major histocompatibility complex.

Authors:
Chen-Shan Chin Justin Wagner Qiandong Zeng Erik Garrison Shilpa Garg Arkarachai Fungtammasan Mikko Rautiainen Sergey Aganezov Melanie Kirsche Samantha Zarate Michael C Schatz Chunlin Xiao William J Rowell Charles Markello Jesse Farek Fritz J Sedlazeck Vikas Bansal Byunggil Yoo Neil Miller Xin Zhou Andrew Carroll Alvaro Martinez Barrio Marc Salit Tobias Marschall Alexander T Dilthey Justin M Zook

Nat Commun 2020 09 22;11(1):4794. Epub 2020 Sep 22.

Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr, MS8312, Gaithersburg, MD, 20899, USA.

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September 2020

Author Correction: A robust benchmark for detection of germline large deletions and insertions.

Authors:
Justin M Zook Nancy F Hansen Nathan D Olson Lesley Chapman James C Mullikin Chunlin Xiao Stephen Sherry Sergey Koren Adam M Phillippy Paul C Boutros Sayed Mohammad E Sahraeian Vincent Huang Alexandre Rouette Noah Alexander Christopher E Mason Iman Hajirasouliha Camir Ricketts Joyce Lee Rick Tearle Ian T Fiddes Alvaro Martinez Barrio Jeremiah Wala Andrew Carroll Noushin Ghaffari Oscar L Rodriguez Ali Bashir Shaun Jackman John J Farrell Aaron M Wenger Can Alkan Arda Soylev Michael C Schatz Shilpa Garg George Church Tobias Marschall Ken Chen Xian Fan Adam C English Jeffrey A Rosenfeld Weichen Zhou Ryan E Mills Jay M Sage Jennifer R Davis Michael D Kaiser John S Oliver Anthony P Catalano Mark J P Chaisson Noah Spies Fritz J Sedlazeck Marc Salit

Nat Biotechnol 2020 Nov;38(11):1357

Joint Initiative for Metrology in Biology, SLAC National Accelerator Lab, Stanford University, Stanford, CA, USA.

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November 2020

A crowdsourced set of curated structural variants for the human genome.

Authors:
Lesley M Chapman Noah Spies Patrick Pai Chun Shen Lim Andrew Carroll Giuseppe Narzisi Christopher M Watson Christos Proukakis Wayne E Clarke Naoki Nariai Eric Dawson Garan Jones Daniel Blankenberg Christian Brueffer Chunlin Xiao Sree Rohit Raj Kolora Noah Alexander Paul Wolujewicz Azza E Ahmed Graeme Smith Saadlee Shehreen Aaron M Wenger Marc Salit Justin M Zook

PLoS Comput Biol 2020 06 19;16(6):e1007933. Epub 2020 Jun 19.

Biosystems and Biomaterials Division, Material Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, Maryland, United States of America.

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June 2020

A robust benchmark for detection of germline large deletions and insertions.

Authors:
Justin M Zook Nancy F Hansen Nathan D Olson Lesley Chapman James C Mullikin Chunlin Xiao Stephen Sherry Sergey Koren Adam M Phillippy Paul C Boutros Sayed Mohammad E Sahraeian Vincent Huang Alexandre Rouette Noah Alexander Christopher E Mason Iman Hajirasouliha Camir Ricketts Joyce Lee Rick Tearle Ian T Fiddes Alvaro Martinez Barrio Jeremiah Wala Andrew Carroll Noushin Ghaffari Oscar L Rodriguez Ali Bashir Shaun Jackman John J Farrell Aaron M Wenger Can Alkan Arda Soylev Michael C Schatz Shilpa Garg George Church Tobias Marschall Ken Chen Xian Fan Adam C English Jeffrey A Rosenfeld Weichen Zhou Ryan E Mills Jay M Sage Jennifer R Davis Michael D Kaiser John S Oliver Anthony P Catalano Mark J P Chaisson Noah Spies Fritz J Sedlazeck Marc Salit

Nat Biotechnol 2020 11 15;38(11):1347-1355. Epub 2020 Jun 15.

Joint Initiative for Metrology in Biology, SLAC National Accelerator Lab, Stanford University, Stanford, CA, USA.

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November 2020

Hirayama Disease Treated by Anterior Cervical Diskectomy and Fusion: Case Report and Literature Review.

Authors:
Jiaquan Luo Kanghua Yang Yanchun Zhong Yongjun Ye Chunlin Xiao Qingshen Zeng Wenchao Yin Weimin Huang Wuyang Liu

World Neurosurg 2020 09 12;141:171-174. Epub 2020 Jun 12.

Department of Spine Surgery, The First Affiliated Hospital of Gannan Medical University, Ganzhou, P.R. China. Electronic address:

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September 2020

Dynesys system vs posterior decompression and fusion for the treatment of lumbar degenerative diseases.

Authors:
Hongbo Wang Jun Peng Qingshen Zeng Yanchun Zhong Chunlin Xiao Yongjun Ye Weimin Huang Wuyang Liu Jiaquan Luo

Medicine (Baltimore) 2020 May;99(21):e19784

Department of Spine Surgery, The First Affiliated Hospital of Gannan Medical University, Ganzhou, PR China.

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May 2020

High-coverage, long-read sequencing of Han Chinese trio reference samples.

Authors:
Ying-Chih Wang Nathan D Olson Gintaras Deikus Hardik Shah Aaron M Wenger Jonathan Trow Chunlin Xiao Stephen Sherry Marc L Salit Justin M Zook Melissa Smith Robert Sebra

Sci Data 2019 06 14;6(1):91. Epub 2019 Jun 14.

Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, 1 Gustave L Levy Pl, New York, NY, 10029, USA.

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June 2019

Correction to: Similarities and differences between variants called with human reference genome HG19 or HG38.

Authors:
Bohu Pan Rebecca Kusko Wenming Xiao Yuanting Zheng Zhichao Liu Chunlin Xiao Sugunadevi Sakkiah Wenjing Guo Ping Gong Chaoyang Zhang Weigong Ge Leming Shi Weida Tong Huixiao Hong

BMC Bioinformatics 2019 May 15;20(1):252. Epub 2019 May 15.

Division of Bioinformatics and Biostatistics, National Center for Toxicological Research, U.S. Food and Drug Administration, Jefferson, AR, 72079, USA.

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May 2019

An open resource for accurately benchmarking small variant and reference calls.

Authors:
Justin M Zook Jennifer McDaniel Nathan D Olson Justin Wagner Hemang Parikh Haynes Heaton Sean A Irvine Len Trigg Rebecca Truty Cory Y McLean Francisco M De La Vega Chunlin Xiao Stephen Sherry Marc Salit

Nat Biotechnol 2019 05 1;37(5):561-566. Epub 2019 Apr 1.

Material Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, MD, USA.

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May 2019

Similarities and differences between variants called with human reference genome HG19 or HG38.

Authors:
Bohu Pan Rebecca Kusko Wenming Xiao Yuanting Zheng Zhichao Liu Chunlin Xiao Sugunadevi Sakkiah Wenjing Guo Ping Gong Chaoyang Zhang Weigong Ge Leming Shi Weida Tong Huixiao Hong

BMC Bioinformatics 2019 Mar 14;20(Suppl 2):101. Epub 2019 Mar 14.

Division of Bioinformatics and Biostatistics, National Center for Toxicological Research, U.S. Food and Drug Administration, Jefferson, AR, 72079, USA.

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March 2019

Efficacy of acupuncture on pelvic pain in patients with endometriosis: study protocol for a randomized, single-blind, multi-center, placebo-controlled trial.

Authors:
Ruining Liang Peishuang Li Xuemei Peng Ling Xu Pei Fan Jiahua Peng Xu Zhou Chunlin Xiao Miao Jiang

Trials 2018 Jun 7;19(1):314. Epub 2018 Jun 7.

Department of Traditional Chinese Medicine, Jiangxi University of Traditional Chinese Medicine, Nanchang, China.

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June 2018

Elevated ammonium reduces the negative effect of heat stress on the stony coral Pocillopora damicornis.

Authors:
Zhi Zhou Guoqing Zhang Guangmei Chen Xingzhen Ni Liping Guo Xiaopeng Yu Chunlin Xiao Yanlai Xu Xiaowei Shi Bo Huang

Mar Pollut Bull 2017 May 13;118(1-2):319-327. Epub 2017 Mar 13.

Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, Haikou 570228, China.

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May 2017

Extensive sequencing of seven human genomes to characterize benchmark reference materials.

Authors:
Justin M Zook David Catoe Jennifer McDaniel Lindsay Vang Noah Spies Arend Sidow Ziming Weng Yuling Liu Christopher E Mason Noah Alexander Elizabeth Henaff Alexa B R McIntyre Dhruva Chandramohan Feng Chen Erich Jaeger Ali Moshrefi Khoa Pham William Stedman Tiffany Liang Michael Saghbini Zeljko Dzakula Alex Hastie Han Cao Gintaras Deikus Eric Schadt Robert Sebra Ali Bashir Rebecca M Truty Christopher C Chang Natali Gulbahce Keyan Zhao Srinka Ghosh Fiona Hyland Yutao Fu Mark Chaisson Chunlin Xiao Jonathan Trow Stephen T Sherry Alexander W Zaranek Madeleine Ball Jason Bobe Preston Estep George M Church Patrick Marks Sofia Kyriazopoulou-Panagiotopoulou Grace X Y Zheng Michael Schnall-Levin Heather S Ordonez Patrice A Mudivarti Kristina Giorda Ying Sheng Karoline Bjarnesdatter Rypdal Marc Salit

Sci Data 2016 Jun 7;3:160025. Epub 2016 Jun 7.

National Institute of Standards and Technology, Gaithersburg, Maryland 20899, USA.

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June 2016

The 1000 Genomes Project: data management and community access.

Authors:
Laura Clarke Xiangqun Zheng-Bradley Richard Smith Eugene Kulesha Chunlin Xiao Iliana Toneva Brendan Vaughan Don Preuss Rasko Leinonen Martin Shumway Stephen Sherry Paul Flicek

Nat Methods 2012 Apr 27;9(5):459-62. Epub 2012 Apr 27.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.

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April 2012

A recurrent 15q13.3 microdeletion syndrome associated with mental retardation and seizures.

Authors:
Andrew J Sharp Heather C Mefford Kelly Li Carl Baker Cindy Skinner Roger E Stevenson Richard J Schroer Francesca Novara Manuela De Gregori Roberto Ciccone Adam Broomer Iris Casuga Yu Wang Chunlin Xiao Catalin Barbacioru Giorgio Gimelli Bernardo Dalla Bernardina Claudia Torniero Roberto Giorda Regina Regan Victoria Murday Sahar Mansour Marco Fichera Lucia Castiglia Pinella Failla Mario Ventura Zhaoshi Jiang Gregory M Cooper Samantha J L Knight Corrado Romano Orsetta Zuffardi Caifu Chen Charles E Schwartz Evan E Eichler

Nat Genet 2008 Mar 17;40(3):322-8. Epub 2008 Feb 17.

Department of Genome Sciences, University of Washington School of Medicine, 1705 NE Pacific St., Seattle, Washington 98195, USA.

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March 2008

The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements.

Authors:
Leming Shi Laura H Reid Wendell D Jones Richard Shippy Janet A Warrington Shawn C Baker Patrick J Collins Francoise de Longueville Ernest S Kawasaki Kathleen Y Lee Yuling Luo Yongming Andrew Sun James C Willey Robert A Setterquist Gavin M Fischer Weida Tong Yvonne P Dragan David J Dix Felix W Frueh Frederico M Goodsaid Damir Herman Roderick V Jensen Charles D Johnson Edward K Lobenhofer Raj K Puri Uwe Schrf Jean Thierry-Mieg Charles Wang Mike Wilson Paul K Wolber Lu Zhang Shashi Amur Wenjun Bao Catalin C Barbacioru Anne Bergstrom Lucas Vincent Bertholet Cecilie Boysen Bud Bromley Donna Brown Alan Brunner Roger Canales Xiaoxi Megan Cao Thomas A Cebula James J Chen Jing Cheng Tzu-Ming Chu Eugene Chudin John Corson J Christopher Corton Lisa J Croner Christopher Davies Timothy S Davison Glenda Delenstarr Xutao Deng David Dorris Aron C Eklund Xiao-hui Fan Hong Fang Stephanie Fulmer-Smentek James C Fuscoe Kathryn Gallagher Weigong Ge Lei Guo Xu Guo Janet Hager Paul K Haje Jing Han Tao Han Heather C Harbottle Stephen C Harris Eli Hatchwell Craig A Hauser Susan Hester Huixiao Hong Patrick Hurban Scott A Jackson Hanlee Ji Charles R Knight Winston P Kuo J Eugene LeClerc Shawn Levy Quan-Zhen Li Chunmei Liu Ying Liu Michael J Lombardi Yunqing Ma Scott R Magnuson Botoul Maqsodi Tim McDaniel Nan Mei Ola Myklebost Baitang Ning Natalia Novoradovskaya Michael S Orr Terry W Osborn Adam Papallo Tucker A Patterson Roger G Perkins Elizabeth H Peters Ron Peterson Kenneth L Philips P Scott Pine Lajos Pusztai Feng Qian Hongzu Ren Mitch Rosen Barry A Rosenzweig Raymond R Samaha Mark Schena Gary P Schroth Svetlana Shchegrova Dave D Smith Frank Staedtler Zhenqiang Su Hongmei Sun Zoltan Szallasi Zivana Tezak Danielle Thierry-Mieg Karol L Thompson Irina Tikhonova Yaron Turpaz Beena Vallanat Christophe Van Stephen J Walker Sue Jane Wang Yonghong Wang Russ Wolfinger Alex Wong Jie Wu Chunlin Xiao Qian Xie Jun Xu Wen Yang Liang Zhang Sheng Zhong Yaping Zong William Slikker

Nat Biotechnol 2006 Sep;24(9):1151-61

National Center for Toxicological Research, US Food and Drug Administration, Jefferson, Arkansas 72079, USA.

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September 2006

Distinct molecular mechanisms underlying clinically relevant subtypes of breast cancer: gene expression analyses across three different platforms.

Authors:
Therese Sørlie Yulei Wang Chunlin Xiao Hilde Johnsen Bjørn Naume Raymond R Samaha Anne-Lise Børresen-Dale

BMC Genomics 2006 May 26;7:127. Epub 2006 May 26.

Department of Genetics, Institute for Cancer Research, Rikshospitalet-Radiumhospitalet Medical Center, N-0310 Oslo, Norway.

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May 2006

An efficient and high-throughput approach for experimental validation of novel human gene predictions.

Authors:
Pius M Brzoska Clark Brown Michael Cassel Toni Ceccardi Valentina Di Francisco Alex Dubman Jason Evans Rixun Fang Michael Harris Jeffrey Hoover Fangqi Hu Charles Larry Peter Li Michael Malicdem Sergei Maltchenko Mark Shannon Sarah Perkins Karen Poulter Marion Webster-Laig Chunlin Xiao Sonny Young Gene Spier Karl Guegler Dennis Gilbert Raymond R Samaha

Genomics 2006 Apr 9;87(4):437-45. Epub 2006 Jan 9.

Applied Biosystems, 850 Lincoln Center Drive, Foster City, CA 94404, USA.

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April 2006

A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome.

Authors:
Richard J Mural Mark D Adams Eugene W Myers Hamilton O Smith George L Gabor Miklos Ron Wides Aaron Halpern Peter W Li Granger G Sutton Joe Nadeau Steven L Salzberg Robert A Holt Chinnappa D Kodira Fu Lu Lin Chen Zuoming Deng Carlos C Evangelista Weiniu Gan Thomas J Heiman Jiayin Li Zhenya Li Gennady V Merkulov Natalia V Milshina Ashwinikumar K Naik Rong Qi Bixiong Chris Shue Aihui Wang Jian Wang Xin Wang Xianghe Yan Jane Ye Shibu Yooseph Qi Zhao Liansheng Zheng Shiaoping C Zhu Kendra Biddick Randall Bolanos Arthur L Delcher Ian M Dew Daniel Fasulo Michael J Flanigan Daniel H Huson Saul A Kravitz Jason R Miller Clark M Mobarry Knut Reinert Karin A Remington Qing Zhang Xiangqun H Zheng Deborah R Nusskern Zhongwu Lai Yiding Lei Wenyan Zhong Alison Yao Ping Guan Rui-Ru Ji Zhiping Gu Zhen-Yuan Wang Fei Zhong Chunlin Xiao Chia-Chien Chiang Mark Yandell Jennifer R Wortman Peter G Amanatides Suzanne L Hladun Eric C Pratts Jeffery E Johnson Kristina L Dodson Kerry J Woodford Cheryl A Evans Barry Gropman Douglas B Rusch Eli Venter Mei Wang Thomas J Smith Jarrett T Houck Donald E Tompkins Charles Haynes Debbie Jacob Soo H Chin David R Allen Carl E Dahlke Robert Sanders Kelvin Li Xiangjun Liu Alexander A Levitsky William H Majoros Quan Chen Ashley C Xia John R Lopez Michael T Donnelly Matthew H Newman Anna Glodek Cheryl L Kraft Marc Nodell Feroze Ali Hui-Jin An Danita Baldwin-Pitts Karen Y Beeson Shuang Cai Mark Carnes Amy Carver Parris M Caulk Angela Center Yen-Hui Chen Ming-Lai Cheng My D Coyne Michelle Crowder Steven Danaher Lionel B Davenport Raymond Desilets Susanne M Dietz Lisa Doup Patrick Dullaghan Steven Ferriera Carl R Fosler Harold C Gire Andres Gluecksmann Jeannine D Gocayne Jonathan Gray Brit Hart Jason Haynes Jeffery Hoover Tim Howland Chinyere Ibegwam Mena Jalali David Johns Leslie Kline Daniel S Ma Steven MacCawley Anand Magoon Felecia Mann David May Tina C McIntosh Somil Mehta Linda Moy Mee C Moy Brian J Murphy Sean D Murphy Keith A Nelson Zubeda Nuri Kimberly A Parker Alexandre C Prudhomme Vinita N Puri Hina Qureshi John C Raley Matthew S Reardon Megan A Regier Yu-Hui C Rogers Deanna L Romblad Jakob Schutz John L Scott Richard Scott Cynthia D Sitter Michella Smallwood Arlan C Sprague Erin Stewart Renee V Strong Ellen Suh Karena Sylvester Reginald Thomas Ni Ni Tint Christopher Tsonis Gary Wang George Wang Monica S Williams Sherita M Williams Sandra M Windsor Keriellen Wolfe Mitchell M Wu Jayshree Zaveri Kabir Chaturvedi Andrei E Gabrielian Zhaoxi Ke Jingtao Sun Gangadharan Subramanian J Craig Venter Cynthia M Pfannkoch Mary Barnstead Lisa D Stephenson

Science 2002 May;296(5573):1661-71

Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA.

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May 2002