Publications by authors named "Kelley Harris"

20Publications

Quantifying and contextualizing the impact of bioRxiv preprints through automated social media audience segmentation.

PLoS Biol 2020 09 22;18(9):e3000860. Epub 2020 Sep 22.

Department of Genome Sciences, University of Washington, Seattle, Washington, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.3000860DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7508356PMC
September 2020

Selection against archaic hominin genetic variation in regulatory regions.

Nat Ecol Evol 2020 Nov 24;4(11):1558-1566. Epub 2020 Aug 24.

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

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http://dx.doi.org/10.1038/s41559-020-01284-0DOI Listing
November 2020

Inferring evolutionary dynamics of mutation rates through the lens of mutation spectrum variation.

Curr Opin Genet Dev 2020 Jun 30;62:50-57. Epub 2020 Jun 30.

Department of Genome Sciences, Foege Hall, University of Washington, Seattle, WA 98105, United States; Computational Biology Program, Fred Hutchinson Cancer Research Center, 1100 Eastlake Ave E, Seattle, WA 98109, United States. Electronic address:

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http://dx.doi.org/10.1016/j.gde.2020.05.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7646088PMC
June 2020

From a database of genomes to a forest of evolutionary trees.

Authors:
Kelley Harris

Nat Genet 2019 09;51(9):1306-1307

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

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http://dx.doi.org/10.1038/s41588-019-0492-xDOI Listing
September 2019

The randomness that shapes our DNA.

Authors:
Kelley Harris

Elife 2018 10 9;7. Epub 2018 Oct 9.

Department of Genome Sciences, University of Washington, Seattle, United States.

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http://dx.doi.org/10.7554/eLife.41491DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6177256PMC
October 2018

Reading the genome like a history book.

Authors:
Kelley Harris

Science 2017 Dec;358(6368):1265

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http://dx.doi.org/10.1126/science.aar2003DOI Listing
December 2017

Q&A: Where did the Neanderthals go?

BMC Biol 2017 09 1;15(1):73. Epub 2017 Sep 1.

Department of Integrative Biology, University of California, Berkeley, California, USA.

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http://dx.doi.org/10.1186/s12915-017-0414-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5580322PMC
September 2017

Rapid evolution of the human mutation spectrum.

Elife 2017 04 25;6. Epub 2017 Apr 25.

Department of Genetics, Stanford University, Stanford, United States.

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http://dx.doi.org/10.7554/eLife.24284DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5435464PMC
April 2017

The Genetic Cost of Neanderthal Introgression.

Genetics 2016 06 2;203(2):881-91. Epub 2016 Apr 2.

Department of Integrative Biology, University of California, Berkeley, California Department of Statistics, University of California, Berkeley, California 94720 The Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark.

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http://dx.doi.org/10.1534/genetics.116.186890DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4896200PMC
June 2016

POPULATION GENETICS. Genomic evidence for the Pleistocene and recent population history of Native Americans.

Authors:
Maanasa Raghavan Matthias Steinrücken Kelley Harris Stephan Schiffels Simon Rasmussen Michael DeGiorgio Anders Albrechtsen Cristina Valdiosera María C Ávila-Arcos Anna-Sapfo Malaspinas Anders Eriksson Ida Moltke Mait Metspalu Julian R Homburger Jeff Wall Omar E Cornejo J Víctor Moreno-Mayar Thorfinn S Korneliussen Tracey Pierre Morten Rasmussen Paula F Campos Peter de Barros Damgaard Morten E Allentoft John Lindo Ene Metspalu Ricardo Rodríguez-Varela Josefina Mansilla Celeste Henrickson Andaine Seguin-Orlando Helena Malmström Thomas Stafford Suyash S Shringarpure Andrés Moreno-Estrada Monika Karmin Kristiina Tambets Anders Bergström Yali Xue Vera Warmuth Andrew D Friend Joy Singarayer Paul Valdes Francois Balloux Ilán Leboreiro Jose Luis Vera Hector Rangel-Villalobos Davide Pettener Donata Luiselli Loren G Davis Evelyne Heyer Christoph P E Zollikofer Marcia S Ponce de León Colin I Smith Vaughan Grimes Kelly-Anne Pike Michael Deal Benjamin T Fuller Bernardo Arriaza Vivien Standen Maria F Luz Francois Ricaut Niede Guidon Ludmila Osipova Mikhail I Voevoda Olga L Posukh Oleg Balanovsky Maria Lavryashina Yuri Bogunov Elza Khusnutdinova Marina Gubina Elena Balanovska Sardana Fedorova Sergey Litvinov Boris Malyarchuk Miroslava Derenko M J Mosher David Archer Jerome Cybulski Barbara Petzelt Joycelynn Mitchell Rosita Worl Paul J Norman Peter Parham Brian M Kemp Toomas Kivisild Chris Tyler-Smith Manjinder S Sandhu Michael Crawford Richard Villems David Glenn Smith Michael R Waters Ted Goebel John R Johnson Ripan S Malhi Mattias Jakobsson David J Meltzer Andrea Manica Richard Durbin Carlos D Bustamante Yun S Song Rasmus Nielsen Eske Willerslev

Science 2015 Aug 21;349(6250):aab3884. Epub 2015 Jul 21.

Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.

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http://dx.doi.org/10.1126/science.aab3884DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4733658PMC
August 2015

Evidence for recent, population-specific evolution of the human mutation rate.

Authors:
Kelley Harris

Proc Natl Acad Sci U S A 2015 Mar 2;112(11):3439-44. Epub 2015 Mar 2.

Department of Mathematics, University of California, Berkeley, CA 94703

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http://dx.doi.org/10.1073/pnas.1418652112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4371947PMC
March 2015

Decoding coalescent hidden Markov models in linear time.

Res Comput Mol Biol 2014 ;8394:100-114

Department of Integrative Biology, University of California, Berkeley.

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http://dx.doi.org/10.1007/978-3-319-05269-4_8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4203418PMC
January 2014

The projection of a test genome onto a reference population and applications to humans and archaic hominins.

Genetics 2014 Dec 15;198(4):1655-70. Epub 2014 Oct 15.

Department of Integrative Biology, University of California, Berkeley, California 94720

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http://dx.doi.org/10.1534/genetics.112.145359DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256778PMC
December 2014

Error-prone polymerase activity causes multinucleotide mutations in humans.

Genome Res 2014 Sep 30;24(9):1445-54. Epub 2014 Jul 30.

Department of Integrative Biology, University of California Berkeley, Berkeley, California 94703, USA; Department of Statistics, University of California Berkeley, Berkeley, California 94703, USA; Center for Bioinformatics, University of Copenhagen, 2200 Copenhagen, Denmark.

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http://cteg.berkeley.edu/~nielsen/wordpress/wp-content/uploa
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http://genome.cshlp.org/lookup/doi/10.1101/gr.170696.113
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http://dx.doi.org/10.1101/gr.170696.113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4158752PMC
September 2014

Population genomics reveal recent speciation and rapid evolutionary adaptation in polar bears.

Cell 2014 May;157(4):785-94

BGI-Shenzhen, Shenzhen 518083, China; Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, 2200 Copenhagen Ø, Denmark; Princess Al Jawhara Center of Excellence in the Research of Hereditary Disorders, King Abdulaziz University, Jeddah 21589, Saudi Arabia; Macau University of Science and Technology, Avenida Wai Long, Taipa, Macau 999078, China; Department of Medicine, University of Hong Kong, Sassoon Road, Pokfulam, Hong Kong. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.03.054DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4089990PMC
May 2014

Inferring demographic history from a spectrum of shared haplotype lengths.

PLoS Genet 2013 Jun 6;9(6):e1003521. Epub 2013 Jun 6.

Department of Mathematics, University of California Berkeley, Berkeley, CA, USA.

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http://dx.doi.org/10.1371/journal.pgen.1003521DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3675002PMC
June 2013

Estimating variable effective population sizes from multiple genomes: a sequentially markov conditional sampling distribution approach.

Genetics 2013 Jul 22;194(3):647-62. Epub 2013 Apr 22.

Computer Science Division, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1534/genetics.112.149096DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3697970PMC
July 2013

The L1 retrotranspositional stimulation by particulate and soluble cadmium exposure is independent of the generation of DNA breaks.

Int J Environ Res Public Health 2006 Jun;3(2):121-8

Dept. of Biology, Xavier University of Louisiana, 1 Drexel Dr., New Orleans, LA 70125, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3807503PMC
http://dx.doi.org/10.3390/ijerph2006030015DOI Listing
June 2006

Dicer function is essential for lung epithelium morphogenesis.

Proc Natl Acad Sci U S A 2006 Feb 1;103(7):2208-13. Epub 2006 Feb 1.

Laboratory of Genetics, University of Wisconsin, 425-G Henry Mall, Madison, WI 53706, USA.

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http://dx.doi.org/10.1073/pnas.0510839103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1413733PMC
February 2006