Publications by authors named "John Huddleston"

44Publications

Evolution and rapid spread of a reassortant A(H3N2) virus that predominated the 2017-2018 influenza season.

Authors:
Barney I Potter Rebecca Kondor James Hadfield John Huddleston John Barnes Thomas Rowe Lizheng Guo Xiyan Xu Richard A Neher Trevor Bedford David E Wentworth

Virus Evol 2019 Jul 4;5(2):vez046. Epub 2019 Dec 4.

Virology Surveillance and Diagnosis Branch, Influenza Division, National Center for Immunization and Respiratory Diseases (NCIRD), Centers for Disease Control and Prevention (CDC), 1600 Clifton Road, Atlanta, GA 30333, USA.

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July 2019

Complete Mapping of Mutations to the SARS-CoV-2 Spike Receptor-Binding Domain that Escape Antibody Recognition.

Authors:
Allison J Greaney Tyler N Starr Pavlo Gilchuk Seth J Zost Elad Binshtein Andrea N Loes Sarah K Hilton John Huddleston Rachel Eguia Katharine H D Crawford Adam S Dingens Rachel S Nargi Rachel E Sutton Naveenchandra Suryadevara Paul W Rothlauf Zhuoming Liu Sean P J Whelan Robert H Carnahan James E Crowe Jesse D Bloom

Cell Host Microbe 2021 Jan 19;29(1):44-57.e9. Epub 2020 Nov 19.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA; Department of Genome Sciences & Medical Scientist Training Program, University of Washington, Seattle, WA 98195, USA; Howard Hughes Medical Institute, Seattle, WA 98109, USA. Electronic address:

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January 2021

Complete mapping of mutations to the SARS-CoV-2 spike receptor-binding domain that escape antibody recognition.

Authors:
Allison J Greaney Tyler N Starr Pavlo Gilchuk Seth J Zost Elad Binshtein Andrea N Loes Sarah K Hilton John Huddleston Rachel Eguia Katharine H D Crawford Adam S Dingens Rachel S Nargi Rachel E Sutton Naveenchandra Suryadevara Paul W Rothlauf Zhuoming Liu Sean P J Whelan Robert H Carnahan James E Crowe Jesse D Bloom

bioRxiv 2020 Sep 10. Epub 2020 Sep 10.

Basic Sciences Division and Computational Biology Program, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.

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September 2020

Cryptic transmission of SARS-CoV-2 in Washington state.

Authors:
Trevor Bedford Alexander L Greninger Pavitra Roychoudhury Lea M Starita Michael Famulare Meei-Li Huang Arun Nalla Gregory Pepper Adam Reinhardt Hong Xie Lasata Shrestha Truong N Nguyen Amanda Adler Elisabeth Brandstetter Shari Cho Danielle Giroux Peter D Han Kairsten Fay Chris D Frazar Misja Ilcisin Kirsten Lacombe Jover Lee Anahita Kiavand Matthew Richardson Thomas R Sibley Melissa Truong Caitlin R Wolf Deborah A Nickerson Mark J Rieder Janet A Englund James Hadfield Emma B Hodcroft John Huddleston Louise H Moncla Nicola F Müller Richard A Neher Xianding Deng Wei Gu Scot Federman Charles Chiu Jeffrey S Duchin Romesh Gautom Geoff Melly Brian Hiatt Philip Dykema Scott Lindquist Krista Queen Ying Tao Anna Uehara Suxiang Tong Duncan MacCannell Gregory L Armstrong Geoffrey S Baird Helen Y Chu Jay Shendure Keith R Jerome

Science 2020 10 10;370(6516):571-575. Epub 2020 Sep 10.

Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.

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October 2020

Integrating genotypes and phenotypes improves long-term forecasts of seasonal influenza A/H3N2 evolution.

Authors:
John Huddleston John R Barnes Thomas Rowe Xiyan Xu Rebecca Kondor David E Wentworth Lynne Whittaker Burcu Ermetal Rodney Stuart Daniels John W McCauley Seiichiro Fujisaki Kazuya Nakamura Noriko Kishida Shinji Watanabe Hideki Hasegawa Ian Barr Kanta Subbarao Pierre Barrat-Charlaix Richard A Neher Trevor Bedford

Elife 2020 09 2;9. Epub 2020 Sep 2.

Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, United States.

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September 2020

An evolutionary driver of interspersed segmental duplications in primates.

Authors:
Stuart Cantsilieris Susan M Sunkin Matthew E Johnson Fabio Anaclerio John Huddleston Carl Baker Max L Dougherty Jason G Underwood Arvis Sulovari PingHsun Hsieh Yafei Mao Claudia Rita Catacchio Maika Malig AnneMarie E Welch Melanie Sorensen Katherine M Munson Weihong Jiang Santhosh Girirajan Mario Ventura Bruce T Lamb Ronald A Conlon Evan E Eichler

Genome Biol 2020 08 10;21(1):202. Epub 2020 Aug 10.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA, 98195, USA.

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August 2020

Cryptic transmission of SARS-CoV-2 in Washington State.

Authors:
Trevor Bedford Alexander L Greninger Pavitra Roychoudhury Lea M Starita Michael Famulare Meei-Li Huang Arun Nalla Gregory Pepper Adam Reinhardt Hong Xie Lasata Shrestha Truong N Nguyen Amanda Adler Elisabeth Brandstetter Shari Cho Danielle Giroux Peter D Han Kairsten Fay Chris D Frazar Misja Ilcisin Kirsten Lacombe Jover Lee Anahita Kiavand Matthew Richardson Thomas R Sibley Melissa Truong Caitlin R Wolf Deborah A Nickerson Mark J Rieder Janet A Englund James Hadfield Emma B Hodcroft John Huddleston Louise H Moncla Nicola F Müller Richard A Neher Xianding Deng Wei Gu Scot Federman Charles Chiu Jeff Duchin Romesh Gautom Geoff Melly Brian Hiatt Philip Dykema Scott Lindquist Krista Queen Ying Tao Anna Uehara Suxiang Tong Duncan MacCannell Gregory L Armstrong Geoffrey S Baird Helen Y Chu Jay Shendure Keith R Jerome

medRxiv 2020 Apr 6. Epub 2020 Apr 6.

Fred Hutchinson Cancer Research Center, Seattle, WA USA.

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April 2020

A slipped-CAG DNA-binding small molecule induces trinucleotide-repeat contractions in vivo.

Authors:
Masayuki Nakamori Gagan B Panigrahi Stella Lanni Terence Gall-Duncan Hideki Hayakawa Hana Tanaka Jennifer Luo Takahiro Otabe Jinxing Li Akihiro Sakata Marie-Christine Caron Niraj Joshi Tanya Prasolava Karen Chiang Jean-Yves Masson Marc S Wold Xiaoxiao Wang Marietta Y W T Lee John Huddleston Katherine M Munson Scott Davidson Mehdi Layeghifard Lisa-Monique Edward Richard Gallon Mauro Santibanez-Koref Asako Murata Masanori P Takahashi Evan E Eichler Adam Shlien Kazuhiko Nakatani Hideki Mochizuki Christopher E Pearson

Nat Genet 2020 02 14;52(2):146-159. Epub 2020 Feb 14.

Program of Genetics & Genome Biology, The Hospital for Sick Children, The Peter Gilgan Centre for Research and Learning, Toronto, Ontario, Canada.

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February 2020

Deep mutational scanning of hemagglutinin helps predict evolutionary fates of human H3N2 influenza variants.

Authors:
Juhye M Lee John Huddleston Michael B Doud Kathryn A Hooper Nicholas C Wu Trevor Bedford Jesse D Bloom

Proc Natl Acad Sci U S A 2018 08 13;115(35):E8276-E8285. Epub 2018 Aug 13.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109;

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August 2018

Nextstrain: real-time tracking of pathogen evolution.

Authors:
James Hadfield Colin Megill Sidney M Bell John Huddleston Barney Potter Charlton Callender Pavel Sagulenko Trevor Bedford Richard A Neher

Bioinformatics 2018 12;34(23):4121-4123

Max Planck Institute for Developmental Biology, Tübingen, Germany.

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December 2018

Recurrent structural variation, clustered sites of selection, and disease risk for the complement factor H () gene family.

Authors:
Stuart Cantsilieris Bradley J Nelson John Huddleston Carl Baker Lana Harshman Kelsi Penewit Katherine M Munson Melanie Sorensen AnneMarie E Welch Vy Dang Felix Grassmann Andrea J Richardson Robyn H Guymer Tina A Graves-Lindsay Richard K Wilson Bernhard H F Weber Paul N Baird Rando Allikmets Evan E Eichler

Proc Natl Acad Sci U S A 2018 05 23;115(19):E4433-E4442. Epub 2018 Apr 23.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195;

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May 2018

Corrigendum: Discovery and genotyping of structural variation from long-read haploid genome sequence data.

Authors:
John Huddleston Mark J P Chaisson Karyn Meltz Steinberg Wes Warren Kendra Hoekzema David Gordon Tina A Graves-Lindsay Katherine M Munson Zev N Kronenberg Laura Vives Paul Peluso Matthew Boitano Chen-Shin Chin Jonas Korlach Richard K Wilson Evan E Eichler

Genome Res 2018 01;28(1):144

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January 2018

Complex Relationships between Chromatin Accessibility, Sequence Divergence, and Gene Expression in Arabidopsis thaliana.

Authors:
Cristina M Alexandre James R Urton Ken Jean-Baptiste John Huddleston Michael W Dorrity Josh T Cuperus Alessandra M Sullivan Felix Bemm Dino Jolic Andrej A Arsovski Agnieszka Thompson Jennifer L Nemhauser Stan Fields Detlef Weigel Kerry L Bubb Christin Queitsch

Mol Biol Evol 2018 04;35(4):837-854

Department of Genome Sciences, University of Washington, Seattle, WA.

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April 2018

A 3-way hybrid approach to generate a new high-quality chimpanzee reference genome (Pan_tro_3.0).

Authors:
Lukas F K Kuderna Chad Tomlinson LaDeana W Hillier Annabel Tran Ian T Fiddes Joel Armstrong Hafid Laayouni David Gordon John Huddleston Raquel Garcia Perez Inna Povolotskaya Aitor Serres Armero Jèssica Gómez Garrido Daniel Ho Paolo Ribeca Tyler Alioto Richard E Green Benedict Paten Arcadi Navarro Jaume Betranpetit Javier Herrero Evan E Eichler Andrew J Sharp Lars Feuk Wesley C Warren Tomas Marques-Bonet

Gigascience 2017 11;6(11):1-6

Institut de Biologia Evolutiva, (CSIC-Universitat Pompeu Fabra), PRBB, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.

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November 2017

The evolution and population diversity of human-specific segmental duplications.

Authors:
Megan Y Dennis Lana Harshman Bradley J Nelson Osnat Penn Stuart Cantsilieris John Huddleston Francesca Antonacci Kelsi Penewit Laura Denman Archana Raja Carl Baker Kenneth Mark Maika Malig Nicolette Janke Claudia Espinoza Holly A F Stessman Xander Nuttle Kendra Hoekzema Tina A Lindsay-Graves Richard K Wilson Evan E Eichler

Nat Ecol Evol 2017 17;1(3):69. Epub 2017 Feb 17.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.

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February 2017

The birth of a human-specific neural gene by incomplete duplication and gene fusion.

Authors:
Max L Dougherty Xander Nuttle Osnat Penn Bradley J Nelson John Huddleston Carl Baker Lana Harshman Michael H Duyzend Mario Ventura Francesca Antonacci Richard Sandstrom Megan Y Dennis Evan E Eichler

Genome Biol 2017 03 9;18(1):49. Epub 2017 Mar 9.

Department of Genome Sciences, University of Washington School of Medicine, 3720 15 Ave NE, S413C, Box 355065, Seattle, WA, 98195-5065, USA.

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March 2017

Epigenetic origin of evolutionary novel centromeres.

Authors:
Doron Tolomeo Oronzo Capozzi Roscoe R Stanyon Nicoletta Archidiacono Pietro D'Addabbo Claudia R Catacchio Stefania Purgato Giovanni Perini Werner Schempp John Huddleston Maika Malig Evan E Eichler Mariano Rocchi

Sci Rep 2017 02 3;7:41980. Epub 2017 Feb 3.

Department of Biology, University of Bari, Bari, Italy.

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February 2017

denovo-db: a compendium of human de novo variants.

Authors:
Tychele N Turner Qian Yi Niklas Krumm John Huddleston Kendra Hoekzema Holly A F Stessman Anna-Lisa Doebley Raphael A Bernier Deborah A Nickerson Evan E Eichler

Nucleic Acids Res 2017 01 5;45(D1):D804-D811. Epub 2016 Oct 5.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.

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January 2017

Discovery and genotyping of structural variation from long-read haploid genome sequence data.

Authors:
John Huddleston Mark J P Chaisson Karyn Meltz Steinberg Wes Warren Kendra Hoekzema David Gordon Tina A Graves-Lindsay Katherine M Munson Zev N Kronenberg Laura Vives Paul Peluso Matthew Boitano Chen-Shin Chin Jonas Korlach Richard K Wilson Evan E Eichler

Genome Res 2017 05 28;27(5):677-685. Epub 2016 Nov 28.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA.

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May 2017

Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region.

Authors:
Kiana Mohajeri Stuart Cantsilieris John Huddleston Bradley J Nelson Bradley P Coe Catarina D Campbell Carl Baker Lana Harshman Katherine M Munson Zev N Kronenberg Milinn Kremitzki Archana Raja Claudia Rita Catacchio Tina A Graves Richard K Wilson Mario Ventura Evan E Eichler

Genome Res 2016 11 7;26(11):1453-1467. Epub 2016 Oct 7.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA.

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November 2016

Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility.

Authors:
Xander Nuttle Giuliana Giannuzzi Michael H Duyzend Joshua G Schraiber Iñigo Narvaiza Peter H Sudmant Osnat Penn Giorgia Chiatante Maika Malig John Huddleston Chris Benner Francesca Camponeschi Simone Ciofi-Baffoni Holly A F Stessman Maria C N Marchetto Laura Denman Lana Harshman Carl Baker Archana Raja Kelsi Penewit Nicolette Janke W Joyce Tang Mario Ventura Lucia Banci Francesca Antonacci Joshua M Akey Chris T Amemiya Fred H Gage Alexandre Reymond Evan E Eichler

Nature 2016 08 3;536(7615):205-9. Epub 2016 Aug 3.

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August 2016

Long-read sequencing and de novo assembly of a Chinese genome.

Authors:
Lingling Shi Yunfei Guo Chengliang Dong John Huddleston Hui Yang Xiaolu Han Aisi Fu Quan Li Na Li Siyi Gong Katherine E Lintner Qiong Ding Zou Wang Jiang Hu Depeng Wang Feng Wang Lin Wang Gholson J Lyon Yongtao Guan Yufeng Shen Oleg V Evgrafov James A Knowles Francoise Thibaud-Nissen Valerie Schneider Chack-Yung Yu Libing Zhou Evan E Eichler Kwok-Fai So Kai Wang

Nat Commun 2016 06 30;7:12065. Epub 2016 Jun 30.

Zilkha Neurogenetic Institute, University of Southern California, Los Angeles, California 90089, USA.

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June 2016

Large Deletions at the SHOX Locus in the Pseudoautosomal Region Are Associated with Skeletal Atavism in Shetland Ponies.

Authors:
Nima Rafati Lisa S Andersson Sofia Mikko Chungang Feng Terje Raudsepp Jessica Pettersson Jan Janecka Ove Wattle Adam Ameur Gunilla Thyreen John Eberth John Huddleston Maika Malig Ernest Bailey Evan E Eichler Göran Dalin Bhanu Chowdary Leif Andersson Gabriella Lindgren Carl-Johan Rubin

G3 (Bethesda) 2016 07 7;6(7):2213-23. Epub 2016 Jul 7.

Department of Medical Biochemistry and Microbiology, Science for Life Laboratory, Uppsala University, Sweden 751 23

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July 2016

An Incomplete Understanding of Human Genetic Variation.

Authors:
John Huddleston Evan E Eichler

Genetics 2016 Apr;202(4):1251-4

Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195 Howard Hughes Medical Institute, University of Washington, Seattle, Washington 98195

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April 2016

Long-read sequence assembly of the gorilla genome.

Authors:
David Gordon John Huddleston Mark J P Chaisson Christopher M Hill Zev N Kronenberg Katherine M Munson Maika Malig Archana Raja Ian Fiddes LaDeana W Hillier Christopher Dunn Carl Baker Joel Armstrong Mark Diekhans Benedict Paten Jay Shendure Richard K Wilson David Haussler Chen-Shan Chin Evan E Eichler

Science 2016 Apr;352(6281):aae0344

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA. Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA.

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April 2016

Genome Sequencing of Autism-Affected Families Reveals Disruption of Putative Noncoding Regulatory DNA.

Authors:
Tychele N Turner Fereydoun Hormozdiari Michael H Duyzend Sarah A McClymont Paul W Hook Ivan Iossifov Archana Raja Carl Baker Kendra Hoekzema Holly A Stessman Michael C Zody Bradley J Nelson John Huddleston Richard Sandstrom Joshua D Smith David Hanna James M Swanson Elaine M Faustman Michael J Bamshad John Stamatoyannopoulos Deborah A Nickerson Andrew S McCallion Robert Darnell Evan E Eichler

Am J Hum Genet 2016 Jan 31;98(1):58-74. Epub 2015 Dec 31.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA; Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA. Electronic address:

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January 2016

Bovine NK-lysin: Copy number variation and functional diversification.

Authors:
Junfeng Chen John Huddleston Reuben M Buckley Maika Malig Sara D Lawhon Loren C Skow Mi Ok Lee Evan E Eichler Leif Andersson James E Womack

Proc Natl Acad Sci U S A 2015 Dec 14;112(52):E7223-9. Epub 2015 Dec 14.

Department of Veterinary Pathobiology, College of Veterinary Medicine, Texas A&M University, College Station, TX 77843;

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December 2015

An integrated map of structural variation in 2,504 human genomes.

Authors:
Peter H Sudmant Tobias Rausch Eugene J Gardner Robert E Handsaker Alexej Abyzov John Huddleston Yan Zhang Kai Ye Goo Jun Markus Hsi-Yang Fritz Miriam K Konkel Ankit Malhotra Adrian M Stütz Xinghua Shi Francesco Paolo Casale Jieming Chen Fereydoun Hormozdiari Gargi Dayama Ken Chen Maika Malig Mark J P Chaisson Klaudia Walter Sascha Meiers Seva Kashin Erik Garrison Adam Auton Hugo Y K Lam Xinmeng Jasmine Mu Can Alkan Danny Antaki Taejeong Bae Eliza Cerveira Peter Chines Zechen Chong Laura Clarke Elif Dal Li Ding Sarah Emery Xian Fan Madhusudan Gujral Fatma Kahveci Jeffrey M Kidd Yu Kong Eric-Wubbo Lameijer Shane McCarthy Paul Flicek Richard A Gibbs Gabor Marth Christopher E Mason Androniki Menelaou Donna M Muzny Bradley J Nelson Amina Noor Nicholas F Parrish Matthew Pendleton Andrew Quitadamo Benjamin Raeder Eric E Schadt Mallory Romanovitch Andreas Schlattl Robert Sebra Andrey A Shabalin Andreas Untergasser Jerilyn A Walker Min Wang Fuli Yu Chengsheng Zhang Jing Zhang Xiangqun Zheng-Bradley Wanding Zhou Thomas Zichner Jonathan Sebat Mark A Batzer Steven A McCarroll Ryan E Mills Mark B Gerstein Ali Bashir Oliver Stegle Scott E Devine Charles Lee Evan E Eichler Jan O Korbel

Nature 2015 Oct;526(7571):75-81

European Molecular Biology Laboratory (EMBL), Genome Biology Unit, Meyerhofstr. 1, 69117 Heidelberg, Germany.

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October 2015

Global diversity, population stratification, and selection of human copy-number variation.

Authors:
Peter H Sudmant Swapan Mallick Bradley J Nelson Fereydoun Hormozdiari Niklas Krumm John Huddleston Bradley P Coe Carl Baker Susanne Nordenfelt Michael Bamshad Lynn B Jorde Olga L Posukh Hovhannes Sahakyan W Scott Watkins Levon Yepiskoposyan M Syafiq Abdullah Claudio M Bravi Cristian Capelli Tor Hervig Joseph T S Wee Chris Tyler-Smith George van Driem Irene Gallego Romero Aashish R Jha Sena Karachanak-Yankova Draga Toncheva David Comas Brenna Henn Toomas Kivisild Andres Ruiz-Linares Antti Sajantila Ene Metspalu Jüri Parik Richard Villems Elena B Starikovskaya George Ayodo Cynthia M Beall Anna Di Rienzo Michael F Hammer Rita Khusainova Elza Khusnutdinova William Klitz Cheryl Winkler Damian Labuda Mait Metspalu Sarah A Tishkoff Stanislav Dryomov Rem Sukernik Nick Patterson David Reich Evan E Eichler

Science 2015 09 6;349(6253):aab3761. Epub 2015 Aug 6.

Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA. Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA.

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September 2015

Resolving the complexity of the human genome using single-molecule sequencing.

Authors:
Mark J P Chaisson John Huddleston Megan Y Dennis Peter H Sudmant Maika Malig Fereydoun Hormozdiari Francesca Antonacci Urvashi Surti Richard Sandstrom Matthew Boitano Jane M Landolin John A Stamatoyannopoulos Michael W Hunkapiller Jonas Korlach Evan E Eichler

Nature 2015 Jan 10;517(7536):608-11. Epub 2014 Nov 10.

1] Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA [2] Howard Hughes Medical Institute, University of Washington, Seattle, Washington 98195, USA.

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January 2015

Single haplotype assembly of the human genome from a hydatidiform mole.

Authors:
Karyn Meltz Steinberg Valerie A Schneider Tina A Graves-Lindsay Robert S Fulton Richa Agarwala John Huddleston Sergey A Shiryev Aleksandr Morgulis Urvashi Surti Wesley C Warren Deanna M Church Evan E Eichler Richard K Wilson

Genome Res 2014 12 4;24(12):2066-76. Epub 2014 Nov 4.

The Genome Institute at Washington University, St. Louis, Missouri 63108, USA;

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December 2014

Palindromic GOLGA8 core duplicons promote chromosome 15q13.3 microdeletion and evolutionary instability.

Authors:
Francesca Antonacci Megan Y Dennis John Huddleston Peter H Sudmant Karyn Meltz Steinberg Jill A Rosenfeld Mattia Miroballo Tina A Graves Laura Vives Maika Malig Laura Denman Archana Raja Andrew Stuart Joyce Tang Brenton Munson Lisa G Shaffer Chris T Amemiya Richard K Wilson Evan E Eichler

Nat Genet 2014 Dec 19;46(12):1293-302. Epub 2014 Oct 19.

1] Department of Genome Sciences, University of Washington, Seattle, Washington, USA. [2] Howard Hughes Medical Institute, University of Washington, Seattle, Washington, USA.

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December 2014

Gibbon genome and the fast karyotype evolution of small apes.

Authors:
Lucia Carbone R Alan Harris Sante Gnerre Krishna R Veeramah Belen Lorente-Galdos John Huddleston Thomas J Meyer Javier Herrero Christian Roos Bronwen Aken Fabio Anaclerio Nicoletta Archidiacono Carl Baker Daniel Barrell Mark A Batzer Kathryn Beal Antoine Blancher Craig L Bohrson Markus Brameier Michael S Campbell Oronzo Capozzi Claudio Casola Giorgia Chiatante Andrew Cree Annette Damert Pieter J de Jong Laura Dumas Marcos Fernandez-Callejo Paul Flicek Nina V Fuchs Ivo Gut Marta Gut Matthew W Hahn Jessica Hernandez-Rodriguez LaDeana W Hillier Robert Hubley Bianca Ianc Zsuzsanna Izsvák Nina G Jablonski Laurel M Johnstone Anis Karimpour-Fard Miriam K Konkel Dennis Kostka Nathan H Lazar Sandra L Lee Lora R Lewis Yue Liu Devin P Locke Swapan Mallick Fernando L Mendez Matthieu Muffato Lynne V Nazareth Kimberly A Nevonen Majesta O'Bleness Cornelia Ochis Duncan T Odom Katherine S Pollard Javier Quilez David Reich Mariano Rocchi Gerald G Schumann Stephen Searle James M Sikela Gabriella Skollar Arian Smit Kemal Sonmez Boudewijn ten Hallers Elizabeth Terhune Gregg W C Thomas Brygg Ullmer Mario Ventura Jerilyn A Walker Jeffrey D Wall Lutz Walter Michelle C Ward Sarah J Wheelan Christopher W Whelan Simon White Larry J Wilhelm August E Woerner Mark Yandell Baoli Zhu Michael F Hammer Tomas Marques-Bonet Evan E Eichler Lucinda Fulton Catrina Fronick Donna M Muzny Wesley C Warren Kim C Worley Jeffrey Rogers Richard K Wilson Richard A Gibbs

Nature 2014 Sep;513(7517):195-201

Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA.

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September 2014

Reconstructing complex regions of genomes using long-read sequencing technology.

Authors:
John Huddleston Swati Ranade Maika Malig Francesca Antonacci Mark Chaisson Lawrence Hon Peter H Sudmant Tina A Graves Can Alkan Megan Y Dennis Richard K Wilson Stephen W Turner Jonas Korlach Evan E Eichler

Genome Res 2014 Apr 13;24(4):688-96. Epub 2014 Jan 13.

Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA;

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April 2014

Hominoid fission of chromosome 14/15 and the role of segmental duplications.

Authors:
Giuliana Giannuzzi Michele Pazienza John Huddleston Francesca Antonacci Maika Malig Laura Vives Evan E Eichler Mario Ventura

Genome Res 2013 Nov 27;23(11):1763-73. Epub 2013 Sep 27.

Dipartimento di Biologia, Università degli Studi di Bari "Aldo Moro," Bari 70125, Italy;

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November 2013

Rapid and accurate large-scale genotyping of duplicated genes and discovery of interlocus gene conversions.

Authors:
Xander Nuttle John Huddleston Brian J O'Roak Francesca Antonacci Marco Fichera Corrado Romano Jay Shendure Evan E Eichler

Nat Methods 2013 Sep 28;10(9):903-9. Epub 2013 Jul 28.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington, USA.

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September 2013

Rates and patterns of great ape retrotransposition.

Authors:
Fereydoun Hormozdiari Miriam K Konkel Javier Prado-Martinez Giorgia Chiatante Irene Hernando Herraez Jerilyn A Walker Benjamin Nelson Can Alkan Peter H Sudmant John Huddleston Claudia R Catacchio Arthur Ko Maika Malig Carl Baker Tomas Marques-Bonet Mario Ventura Mark A Batzer Evan E Eichler

Proc Natl Acad Sci U S A 2013 Aug 24;110(33):13457-62. Epub 2013 Jul 24.

Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA.

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August 2013

Evolution and diversity of copy number variation in the great ape lineage.

Authors:
Peter H Sudmant John Huddleston Claudia R Catacchio Maika Malig Ladeana W Hillier Carl Baker Kiana Mohajeri Ivanela Kondova Ronald E Bontrop Stephan Persengiev Francesca Antonacci Mario Ventura Javier Prado-Martinez Tomas Marques-Bonet Evan E Eichler

Genome Res 2013 Sep 3;23(9):1373-82. Epub 2013 Jul 3.

Department of Genome Sciences, University of Washington, Seattle, Washington 98105, USA.

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September 2013

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data.

Authors:
Chen-Shan Chin David H Alexander Patrick Marks Aaron A Klammer James Drake Cheryl Heiner Alicia Clum Alex Copeland John Huddleston Evan E Eichler Stephen W Turner Jonas Korlach

Nat Methods 2013 Jun 5;10(6):563-9. Epub 2013 May 5.

Pacific Biosciences, Menlo Park, California, USA.

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June 2013

Complete haplotype sequence of the human immunoglobulin heavy-chain variable, diversity, and joining genes and characterization of allelic and copy-number variation.

Authors:
Corey T Watson Karyn M Steinberg John Huddleston Rene L Warren Maika Malig Jacqueline Schein A Jeremy Willsey Jeffrey B Joy Jamie K Scott Tina A Graves Richard K Wilson Robert A Holt Evan E Eichler Felix Breden

Am J Hum Genet 2013 Apr 28;92(4):530-46. Epub 2013 Mar 28.

Department of Biological Sciences, Simon Fraser University, Burnaby, British Columbia, V5A 1S6, Canada.

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April 2013

Racial comparisons of thyroid function and autoimmunity during pregnancy and the postpartum period.

Authors:
Jason A Walker Edward H Illions John F Huddleston Robert C Smallridge

Obstet Gynecol 2005 Dec;106(6):1365-71

Catawba Women's Center, Hickory, North Carolina, USA.

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December 2005

The therapeutic value of maintenance tocolysis: an overview of the evidence.

Authors:
Luis Sanchez-Ramos John F Huddleston

Clin Perinatol 2003 Dec;30(4):841-54

Division of Maternal-Fetal Medicine University of Florida Health Science Center, 653-1 West 8th Street, Jacksonville, FL 32209, USA.

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December 2003

Acute management of preterm labor.

Authors:
John F Huddleston Luis Sanchez-Ramos Kathryn W Huddleston

Clin Perinatol 2003 Dec;30(4):803-24, vii

Division of Maternal-Fetal Medicine, Department of Obstetrics and Gynecology, University of Florida Health Sciences Center, 653 West 8th Street, Jacksonville, FL 32209, USA.

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December 2003

Continued utility of the contraction stress test?

Authors:
John F Huddleston

Clin Obstet Gynecol 2002 Dec;45(4):1005-14

Department of Obstetrics and Gynecology, University of Florida Health Sciences Center, Jacksonville, Florida 32209, USA.

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December 2002