Paul Peluso

Chromosome-scale, haplotype-resolved assembly of human genomes.

Nat Biotechnol 2020 Dec 7. Epub 2020 Dec 7.

Department of Data Sciences, Dana-Farber Cancer Institute, Boston, MA, USA.

December 2020

Highly accurate long-read HiFi sequencing data for five complex genomes.

Authors:

Ting Hon Kristin Mars Greg Young Yu-Chih Tsai Joseph W Karalius Jane M Landolin Nicholas Maurer David Kudrna Michael A Hardigan Cynthia C Steiner Steven J Knapp Doreen Ware Beth Shapiro Paul Peluso David R Rank

Sci Data 2020 11 17;7(1):399. Epub 2020 Nov 17.

Pacific Biosciences of California Inc., 1305 O'Brien Dr., Menlo Park, CA, 94025, USA.

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November 2020

Fully Phased Sequence of a Diploid Human Genome Determined from the DNA of a Single Individual.

Authors:

Llya Soifer Nicole L Fong Nelda Yi Andrea T Ireland Irene Lam Matthew Sooknah Jonathan S Paw Paul Peluso Gregory T Concepcion David Rank Alex R Hastie Vladimir Jojic J Graham Ruby David Botstein Margaret A Roy

G3 (Bethesda) 2020 Sep 2;10(9):2911-2925. Epub 2020 Sep 2.

Calico Life Sciences LLC, South San Francisco, CA 94080

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September 2020

Improved assembly and variant detection of a haploid human genome using single-molecule, high-fidelity long reads.

Authors:

Mitchell R Vollger Glennis A Logsdon Peter A Audano Arvis Sulovari David Porubsky Paul Peluso Aaron M Wenger Gregory T Concepcion Zev N Kronenberg Katherine M Munson Carl Baker Ashley D Sanders Diana C J Spierings Peter M Lansdorp Urvashi Surti Michael W Hunkapiller Evan E Eichler

Ann Hum Genet 2020 03 11;84(2):125-140. Epub 2019 Nov 11.

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

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March 2020

Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome.

Nat Biotechnol 2019 10 12;37(10):1155-1162. Epub 2019 Aug 12.

Pacific Biosciences, Menlo Park, CA, USA.

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October 2019

Improved reference genome of Aedes aegypti informs arbovirus vector control.

Authors:

Benjamin J Matthews Olga Dudchenko Sarah B Kingan Sergey Koren Igor Antoshechkin Jacob E Crawford William J Glassford Margaret Herre Seth N Redmond Noah H Rose Gareth D Weedall Yang Wu Sanjit S Batra Carlos A Brito-Sierra Steven D Buckingham Corey L Campbell Saki Chan Eric Cox Benjamin R Evans Thanyalak Fansiri Igor Filipović Albin Fontaine Andrea Gloria-Soria Richard Hall Vinita S Joardar Andrew K Jones Raissa G G Kay Vamsi K Kodali Joyce Lee Gareth J Lycett Sara N Mitchell Jill Muehling Michael R Murphy Arina D Omer Frederick A Partridge Paul Peluso Aviva Presser Aiden Vidya Ramasamy Gordana Rašić Sourav Roy Karla Saavedra-Rodriguez Shruti Sharan Atashi Sharma Melissa Laird Smith Joe Turner Allison M Weakley Zhilei Zhao Omar S Akbari William C Black Han Cao Alistair C Darby Catherine A Hill J Spencer Johnston Terence D Murphy Alexander S Raikhel David B Sattelle Igor V Sharakhov Bradley J White Li Zhao Erez Lieberman Aiden Richard S Mann Louis Lambrechts Jeffrey R Powell Maria V Sharakhova Zhijian Tu Hugh M Robertson Carolyn S McBride Alex R Hastie Jonas Korlach Daniel E Neafsey Adam M Phillippy Leslie B Vosshall

Nature 2018 11 14;563(7732):501-507. Epub 2018 Nov 14.

Laboratory of Neurogenetics and Behavior, The Rockefeller University, New York, NY, USA.

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November 2018

Therapist and client emotional expression and psychotherapy outcomes: A meta-analysis.

Authors:

Paul R Peluso Robert R Freund

Psychotherapy (Chic) 2018 12;55(4):461-472

Department of Counseling and Psychological Services, State University of New York at Oswego.

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December 2018

Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.

Authors:

Lorena Carro Imen Nouioui Vartul Sangal Jan P Meier-Kolthoff Martha E Trujillo Maria Del Carmen Montero-Calasanz Nevzat Sahin Darren Lee Smith Kristi E Kim Paul Peluso Shweta Deshpande Tanja Woyke Nicole Shapiro Nikos C Kyrpides Hans-Peter Klenk Markus Göker Michael Goodfellow

Sci Rep 2018 01 11;8(1):525. Epub 2018 Jan 11.

School of Biology, Newcastle University, Newcastle upon Tyne, UK.

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January 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

The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism.

Nat Commun 2017 12 1;8(1):1899. Epub 2017 Dec 1.

Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA.

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December 2017

Improved maize reference genome with single-molecule technologies.

Nature 2017 06 12;546(7659):524-527. Epub 2017 Jun 12.

Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA.

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June 2017

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly.

Genome Res 2017 05 10;27(5):849-864. Epub 2017 Apr 10.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

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May 2017

An improved genome assembly uncovers prolific tandem repeats in Atlantic cod.

Authors:

Ole K Tørresen Bastiaan Star Sissel Jentoft William B Reinar Harald Grove Jason R Miller Brian P Walenz James Knight Jenny M Ekholm Paul Peluso Rolf B Edvardsen Ave Tooming-Klunderud Morten Skage Sigbjørn Lien Kjetill S Jakobsen Alexander J Nederbragt

BMC Genomics 2017 01 18;18(1):95. Epub 2017 Jan 18.

Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, Oslo, NO-0316, Norway.

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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

Phased diploid genome assembly with single-molecule real-time sequencing.

Authors:

Chen-Shan Chin Paul Peluso Fritz J Sedlazeck Maria Nattestad Gregory T Concepcion Alicia Clum Christopher Dunn Ronan O'Malley Rosa Figueroa-Balderas Abraham Morales-Cruz Grant R Cramer Massimo Delledonne Chongyuan Luo Joseph R Ecker Dario Cantu David R Rank Michael C Schatz

Nat Methods 2016 Dec 17;13(12):1050-1054. Epub 2016 Oct 17.

Department of Computer Science, Johns Hopkins University, Baltimore, Maryland, USA.

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December 2016

Long-read, whole-genome shotgun sequence data for five model organisms.

Authors:

Kristi E Kim Paul Peluso Primo Babayan P Jane Yeadon Charles Yu William W Fisher Chen-Shan Chin Nicole A Rapicavoli David R Rank Joachim Li David E A Catcheside Susan E Celniker Adam M Phillippy Casey M Bergman Jane M Landolin

Sci Data 2014 25;1:140045. Epub 2014 Nov 25.

Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.

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December 2015

Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution.

Authors:

Daniël P Melters Keith R Bradnam Hugh A Young Natalie Telis Michael R May J Graham Ruby Robert Sebra Paul Peluso John Eid David Rank José Fernando Garcia Joseph L DeRisi Timothy Smith Christian Tobias Jeffrey Ross-Ibarra Ian Korf Simon W L Chan

Genome Biol 2013 Jan 30;14(1):R10. Epub 2013 Jan 30.

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January 2013

Sequencing the unsequenceable: expanded CGG-repeat alleles of the fragile X gene.

Authors:

Erick W Loomis John S Eid Paul Peluso Jun Yin Luke Hickey David Rank Sarah McCalmon Randi J Hagerman Flora Tassone Paul J Hagerman

Genome Res 2013 Jan 11;23(1):121-8. Epub 2012 Oct 11.

Department of Biochemistry and Molecular Medicine, University of California, Davis, School of Medicine, Davis, California 95616, USA.

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January 2013

A hybrid approach for the automated finishing of bacterial genomes.

Nat Biotechnol 2012 Jul 1;30(7):701-707. Epub 2012 Jul 1.

Pacific Biosciences, Menlo Park, CA.

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July 2012

A mathematical model of psychotherapy: an investigation using dynamic non-linear equations to model the therapeutic relationship.

Authors:

Paul R Peluso Larry S Liebovitch John M Gottman Michael D Norman Jessica Su

Psychother Res 2012 17;22(1):40-55. Epub 2011 Nov 17.

Florida Atlantic University, Counselor Education, Boca Raton, FL 33431, USA.

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April 2012

Mathematical model of the dynamics of psychotherapy.

Authors:

Larry S Liebovitch Paul R Peluso Michael D Norman Jessica Su John M Gottman

Cogn Neurodyn 2011 Sep 22;5(3):265-75. Epub 2011 May 22.

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September 2011

DHS working toward multi-band radios. Agencies will be able to communicate seamlessly across bands.

Authors:

Paul Peluso

EMS World 2011 Aug;40(8):54-5

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August 2011

Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany.

N Engl J Med 2011 Aug 27;365(8):709-17. Epub 2011 Jul 27.

University of Maryland School of Medicine, Institute for Genome Sciences and Department of Microbiology, Baltimore, USA.

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August 2011

The origin of the Haitian cholera outbreak strain.

Authors:

Chen-Shan Chin Jon Sorenson Jason B Harris William P Robins Richelle C Charles Roger R Jean-Charles James Bullard Dale R Webster Andrew Kasarskis Paul Peluso Ellen E Paxinos Yoshiharu Yamaichi Stephen B Calderwood John J Mekalanos Eric E Schadt Matthew K Waldor

N Engl J Med 2011 Jan 9;364(1):33-42. Epub 2010 Dec 9.

Pacific Biosciences, Menlo Park, CA, USA.

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January 2011

Real-time DNA sequencing from single polymerase molecules.

Science 2009 Jan 20;323(5910):133-8. Epub 2008 Nov 20.

Pacific Biosciences, 1505 Adams Drive, Menlo Park, CA 94025, USA.

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January 2009

Long, processive enzymatic DNA synthesis using 100% dye-labeled terminal phosphate-linked nucleotides.

Authors:

Jonas Korlach Arek Bibillo Jeffrey Wegener Paul Peluso Thang T Pham Insil Park Sonya Clark Geoff A Otto Stephen W Turner

Nucleosides Nucleotides Nucleic Acids 2008 Sep;27(9):1072-83

Pacific Biosciences Inc., Menlo Park, California 94025, USA.

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September 2008

Parallel confocal detection of single molecules in real time.

Authors:

Paul M Lundquist Cheng F Zhong Peiqian Zhao Austin B Tomaney Paul S Peluso John Dixon Brad Bettman Yves Lacroix Deborah P Kwo Etienne McCullough Mark Maxham Kevin Hester Paul McNitt Donald M Grey Carlos Henriquez Mathieu Foquet Stephen W Turner Denis Zaccarin

Opt Lett 2008 May;33(9):1026-8

Pacific Biosciences Inc., 1505 Adams Drive, Menlo Park, California 94025, USA.

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May 2008

Optimizing antibody immobilization strategies for the construction of protein microarrays.

Authors:

Paul Peluso David S Wilson Duc Do Huu Tran Maanasa Venkatasubbaiah David Quincy Bettina Heidecker Kelli Poindexter Neil Tolani Michael Phelan Krista Witte Linda S Jung Peter Wagner Steffen Nock

Anal Biochem 2003 Jan;312(2):113-24

Zyomyx, Inc., 26101 Research Road, Hayward, CA 94544, USA.

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January 2003

Improved method for pepsinolysis of mouse IgG(1) molecules to F(ab')(2) fragments.

Authors:

David S Wilson Jiangchun Wu Paul Peluso Steffen Nock

J Immunol Methods 2002 Feb;260(1-2):29-36

Department of Biochemistry, Zyomyx, Inc., 26101 Research Road, Hayward, CA 94545, USA.

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February 2002

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