Publications by authors named "Matthew R Henn"

57Publications

Reply to Lagier et al.

J Infect Dis 2017 01 20;215(1):162-164. Epub 2016 Oct 20.

Massachusetts General Hospital, Boston.

View Article and Find Full Text PDF
January 2017

V-Phaser 2: variant inference for viral populations.

BMC Genomics 2013 Oct 3;14:674. Epub 2013 Oct 3.

Broad Institute of MIT & Harvard, 7 Cambridge Center, Cambridge, MA 02142 USA.

View Article and Find Full Text PDF
October 2013

Tracking the evolution of dengue virus strains D2S10 and D2S20 by 454 pyrosequencing.

PLoS One 2013 14;8(1):e54220. Epub 2013 Jan 14.

Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, California, United States of America.

View Article and Find Full Text PDF
August 2013

De novo assembly of highly diverse viral populations.

BMC Genomics 2012 Sep 13;13:475. Epub 2012 Sep 13.

The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.

View Article and Find Full Text PDF
September 2012

Characterization of a model of lethal dengue virus 2 infection in C57BL/6 mice deficient in the alpha/beta interferon receptor.

J Gen Virol 2012 Oct 18;93(Pt 10):2152-2157. Epub 2012 Jul 18.

Division of Infectious Diseases and Vaccinology, School of Public Health, University of California, Berkeley, Berkeley, CA, USA.

View Article and Find Full Text PDF
October 2012

Reemergence and decline of dengue virus serotype 3 in Puerto Rico.

J Infect Dis 2012 Sep 27;206(6):893-901. Epub 2012 Jun 27.

Division of Vector-borne Infectious Diseases, Dengue Branch, Centers for Disease Control and Prevention, San Juan, Puerto Rico.

View Article and Find Full Text PDF
September 2012

Genome-wide patterns of intrahuman dengue virus diversity reveal associations with viral phylogenetic clade and interhost diversity.

J Virol 2012 Aug 30;86(16):8546-58. Epub 2012 May 30.

Division of Infectious Diseases and Vaccinology, School of Public Health, University of California, Berkeley, Berkeley, California, USA.

View Article and Find Full Text PDF
August 2012

Rapid diversification of coevolving marine Synechococcus and a virus.

Proc Natl Acad Sci U S A 2012 Mar 2;109(12):4544-9. Epub 2012 Mar 2.

Department of Biology and Marine Biology, Roger Williams University, Bristol, RI 02809, USA.

View Article and Find Full Text PDF
March 2012

Dynamics of dengue disease severity determined by the interplay between viral genetics and serotype-specific immunity.

Sci Transl Med 2011 Dec;3(114):114ra128

Division of Infectious Diseases and Vaccinology, School of Public Health, University of California, Berkeley, Berkeley, CA 94720-7354, USA.

View Article and Find Full Text PDF
December 2011

Genetic diversity and lineage dynamic of dengue virus serotype 1 (DENV-1) in Cambodia.

Infect Genet Evol 2013 Apr 2;15:59-68. Epub 2011 Jul 2.

Institut Pasteur in Cambodia, Réseau International des Instituts Pasteur, 5 Monivong Boulevard, PO Box 983, Phnom Penh, Cambodia.

View Article and Find Full Text PDF
April 2013

Endurance, refuge, and reemergence of dengue virus type 2, Puerto Rico, 1986-2007.

Emerg Infect Dis 2011 Jan;17(1):64-71

Dengue Branch, Division of Vector-Borne Diseases, National Center for Emerging and Zoonotic Infectious Diseases, Centers for Disease Control and Prevention, San Juan, Puerto Rico.

View Article and Find Full Text PDF
January 2011

PriSM: a primer selection and matching tool for amplification and sequencing of viral genomes.

Bioinformatics 2011 Jan 9;27(2):266-7. Epub 2010 Nov 9.

Broad Institute of MIT & Harvard, Cambridge, MA 02142, USA.

View Article and Find Full Text PDF
January 2011

The major genetic determinants of HIV-1 control affect HLA class I peptide presentation.

Authors:
Florencia Pereyra Xiaoming Jia Paul J McLaren Amalio Telenti Paul I W de Bakker Bruce D Walker Stephan Ripke Chanson J Brumme Sara L Pulit Mary Carrington Carl M Kadie Jonathan M Carlson David Heckerman Robert R Graham Robert M Plenge Steven G Deeks Lauren Gianniny Gabriel Crawford Jordan Sullivan Elena Gonzalez Leela Davies Amy Camargo Jamie M Moore Nicole Beattie Supriya Gupta Andrew Crenshaw Noël P Burtt Candace Guiducci Namrata Gupta Xiaojiang Gao Ying Qi Yuko Yuki Alicja Piechocka-Trocha Emily Cutrell Rachel Rosenberg Kristin L Moss Paul Lemay Jessica O'Leary Todd Schaefer Pranshu Verma Ildiko Toth Brian Block Brett Baker Alissa Rothchild Jeffrey Lian Jacqueline Proudfoot Donna Marie L Alvino Seanna Vine Marylyn M Addo Todd M Allen Marcus Altfeld Matthew R Henn Sylvie Le Gall Hendrik Streeck David W Haas Daniel R Kuritzkes Gregory K Robbins Robert W Shafer Roy M Gulick Cecilia M Shikuma Richard Haubrich Sharon Riddler Paul E Sax Eric S Daar Heather J Ribaudo Brian Agan Shanu Agarwal Richard L Ahern Brady L Allen Sherly Altidor Eric L Altschuler Sujata Ambardar Kathryn Anastos Ben Anderson Val Anderson Ushan Andrady Diana Antoniskis David Bangsberg Daniel Barbaro William Barrie J Bartczak Simon Barton Patricia Basden Nesli Basgoz Suzane Bazner Nicholaos C Bellos Anne M Benson Judith Berger Nicole F Bernard Annette M Bernard Christopher Birch Stanley J Bodner Robert K Bolan Emilie T Boudreaux Meg Bradley James F Braun Jon E Brndjar Stephen J Brown Katherine Brown Sheldon T Brown Jedidiah Burack Larry M Bush Virginia Cafaro Omobolaji Campbell John Campbell Robert H Carlson J Kevin Carmichael Kathleen K Casey Chris Cavacuiti Gregory Celestin Steven T Chambers Nancy Chez Lisa M Chirch Paul J Cimoch Daniel Cohen Lillian E Cohn Brian Conway David A Cooper Brian Cornelson David T Cox Michael V Cristofano George Cuchural Julie L Czartoski Joseph M Dahman Jennifer S Daly Benjamin T Davis Kristine Davis Sheila M Davod Edwin DeJesus Craig A Dietz Eleanor Dunham Michael E Dunn Todd B Ellerin Joseph J Eron John J W Fangman Claire E Farel Helen Ferlazzo Sarah Fidler Anita Fleenor-Ford Renee Frankel Kenneth A Freedberg Neel K French Jonathan D Fuchs Jon D Fuller Jonna Gaberman Joel E Gallant Rajesh T Gandhi Efrain Garcia Donald Garmon Joseph C Gathe Cyril R Gaultier Wondwoosen Gebre Frank D Gilman Ian Gilson Paul A Goepfert Michael S Gottlieb Claudia Goulston Richard K Groger T Douglas Gurley Stuart Haber Robin Hardwicke W David Hardy P Richard Harrigan Trevor N Hawkins Sonya Heath Frederick M Hecht W Keith Henry Melissa Hladek Robert P Hoffman James M Horton Ricky K Hsu Gregory D Huhn Peter Hunt Mark J Hupert Mark L Illeman Hans Jaeger Robert M Jellinger Mina John Jennifer A Johnson Kristin L Johnson Heather Johnson Kay Johnson Jennifer Joly Wilbert C Jordan Carol A Kauffman Homayoon Khanlou Robert K Killian Arthur Y Kim David D Kim Clifford A Kinder Jeffrey T Kirchner Laura Kogelman Erna Milunka Kojic P Todd Korthuis Wayne Kurisu Douglas S Kwon Melissa LaMar Harry Lampiris Massimiliano Lanzafame Michael M Lederman David M Lee Jean M L Lee Marah J Lee Edward T Y Lee Janice Lemoine Jay A Levy Josep M Llibre Michael A Liguori Susan J Little Anne Y Liu Alvaro J Lopez Mono R Loutfy Dawn Loy Debbie Y Mohammed Alan Man Michael K Mansour Vincent C Marconi Martin Markowitz Rui Marques Jeffrey N Martin Harold L Martin Kenneth Hugh Mayer M Juliana McElrath Theresa A McGhee Barbara H McGovern Katherine McGowan Dawn McIntyre Gavin X Mcleod Prema Menezes Greg Mesa Craig E Metroka Dirk Meyer-Olson Andy O Miller Kate Montgomery Karam C Mounzer Ellen H Nagami Iris Nagin Ronald G Nahass Margret O Nelson Craig Nielsen David L Norene David H O'Connor Bisola O Ojikutu Jason Okulicz Olakunle O Oladehin Edward C Oldfield Susan A Olender Mario Ostrowski William F Owen Eunice Pae Jeffrey Parsonnet Andrew M Pavlatos Aaron M Perlmutter Michael N Pierce Jonathan M Pincus Leandro Pisani Lawrence Jay Price Laurie Proia Richard C Prokesch Heather Calderon Pujet Moti Ramgopal Almas Rathod Michael Rausch J Ravishankar Frank S Rhame Constance Shamuyarira Richards Douglas D Richman Berta Rodes Milagros Rodriguez Richard C Rose Eric S Rosenberg Daniel Rosenthal Polly E Ross David S Rubin Elease Rumbaugh Luis Saenz Michelle R Salvaggio William C Sanchez Veeraf M Sanjana Steven Santiago Wolfgang Schmidt Hanneke Schuitemaker Philip M Sestak Peter Shalit William Shay Vivian N Shirvani Vanessa I Silebi James M Sizemore Paul R Skolnik Marcia Sokol-Anderson James M Sosman Paul Stabile Jack T Stapleton Sheree Starrett Francine Stein Hans-Jurgen Stellbrink F Lisa Sterman Valerie E Stone David R Stone Giuseppe Tambussi Randy A Taplitz Ellen M Tedaldi Amalio Telenti William Theisen Richard Torres Lorraine Tosiello Cecile Tremblay Marc A Tribble Phuong D Trinh Alice Tsao Peggy Ueda Anthony Vaccaro Emilia Valadas Thanes J Vanig Isabel Vecino Vilma M Vega Wenoah Veikley Barbara H Wade Charles Walworth Chingchai Wanidworanun Douglas J Ward Daniel A Warner Robert D Weber Duncan Webster Steve Weis David A Wheeler David J White Ed Wilkins Alan Winston Clifford G Wlodaver Angelique van't Wout David P Wright Otto O Yang David L Yurdin Brandon W Zabukovic Kimon C Zachary Beth Zeeman Meng Zhao

Science 2010 Dec 4;330(6010):1551-7. Epub 2010 Nov 4.

Ragon Institute of Massachusetts General Hospital, Massachusetts Institute of Technology (MIT) and Harvard, Boston, MA, USA.

View Article and Find Full Text PDF
December 2010

Whole genome amplification and de novo assembly of single bacterial cells.

PLoS One 2009 Sep 2;4(9):e6864. Epub 2009 Sep 2.

Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America.

View Article and Find Full Text PDF
September 2009

A high-density single nucleotide polymorphism map for Neurospora crassa.

Genetics 2009 Feb 17;181(2):767-81. Epub 2008 Nov 17.

Department of Environmental and Biomolecular Systems, Oregon Health & Science University, Beaverton, Oregon 97006, USA.

View Article and Find Full Text PDF
February 2009

Comparative analysis of genome fragments of Acidobacteria from deep Mediterranean plankton.

Environ Microbiol 2008 Oct 8;10(10):2704-17. Epub 2008 Jul 8.

Unité d'Ecologie, Systématique et Evolution, CNRS UMR8079, Université Paris-Sud 11, 91405 Orsay, France.

View Article and Find Full Text PDF
October 2008

Generating and testing molecular hypotheses in the dermatophytes.

Eukaryot Cell 2008 Aug 6;7(8):1238-45. Epub 2008 Jun 6.

Seattle Biomedical Research Institute, 307 Westlake Ave. North, Suite 500, Seattle, WA 98109-5129, USA.

View Article and Find Full Text PDF
August 2008

Genomics of the fungal kingdom: insights into eukaryotic biology.

Genome Res 2005 Dec;15(12):1620-31

The Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts 02141, USA.

View Article and Find Full Text PDF
December 2005

Growth-dependent stable carbon isotope fractionation by basidiomycete fungi: delta(13)C pattern and physiological process.

Appl Environ Microbiol 2002 Oct;68(10):4956-64

Ecosystem Sciences Division, Department of Environmental Science, Policy, and Management, University of California, Berkeley, California 94720-3110, USA.

View Article and Find Full Text PDF
October 2002

Ecophysiology of C and N isotopic fractionation in forest fungi and the roots of the saprotrophic-mycorrhizal divide.

Oecologia 2001 Aug 1;128(4):480-487. Epub 2001 Aug 1.

Division of Ecosystem Sciences, Department of Environmental Science, Policy, and Management, University of California, Berkeley, 334 Hilgard Hall, 94720-3110, Berkeley, CA, USA.

View Article and Find Full Text PDF
August 2001