Joseph L DeRisi

Joseph L DeRisi

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Joseph L DeRisi

Publications by authors named "Joseph L DeRisi"

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Genomic and serologic characterization of enterovirus A71 brainstem encephalitis.

Neurol Neuroimmunol Neuroinflamm 2020 May 5;7(3). Epub 2020 Mar 5.

From the Medical Scientist Training Program (K.E.L.), University of California, San Francisco; Biomedical Sciences Graduate Program (K.E.L., I.A.H.), University of California, San Francisco; Weill Institute for Neurosciences (R.D.S., I.A.H., P.S.R., A.R., M.R.W.), University of California, San Francisco; Department of Neurology (R.D.S., I.A.H., P.S.R., A.R., M.R.W.), University of California, San Francisco; Institut de Recerca Pediàtrica Hospital Sant Joan de Déu (D.C.-A., C.L., A.V.-R., C.M.-A.), Barcelona, Spain; Chan Zuckerberg Biohub (J.E.P., W.W., C.K.C., E.D.C., J.L.D.), San Francisco; Department of Biochemistry and Biophysics (L.M.K., H.A.S., K.C.Z., J.L.D.), University of California, San Francisco; CIBER Epidemiología y Salud Pública (CIBERESP) (C.L., M.C., C.M.-A.), Health Institute Carlos III; Department of Pediatrics (C.L.), Universitat de Barcelona, Barcelona; Enterovirus Unit (M.C.), Spanish National Centre for Microbiology, Instituto de Salud Carlos III, Madrid, Spain; Division of Infectious Diseases (C.L.), Department of Medicine, University of California, San Francisco; and Department of Medicine. Universitat Internacional de Catalunya (C.M.-A.), Barcelona, Spain.

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http://dx.doi.org/10.1212/NXI.0000000000000703DOI Listing
May 2020

Exploratory analysis of the potential for advanced diagnostic testing to reduce healthcare expenditures of patients hospitalized with meningitis or encephalitis.

PLoS One 2020 15;15(1):e0226895. Epub 2020 Jan 15.

Department of Neurology, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0226895PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6961903PMC
January 2020

An exploration of ambigrammatic sequences in narnaviruses.

Sci Rep 2019 Nov 29;9(1):17982. Epub 2019 Nov 29.

Chan Zuckerberg Biohub, 499 Illinois Street, San Francisco, CA, 94158, USA.

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http://dx.doi.org/10.1038/s41598-019-54181-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6884476PMC
November 2019

Miniaturization and optimization of 384-well compatible RNA sequencing library preparation.

PLoS One 2019 10;14(1):e0206194. Epub 2019 Jan 10.

UCSF School of Medicine, Department of Biochemistry & Biophysics, San Francisco, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0206194PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6328170PMC
September 2019

Kelch-like Protein 11 Antibodies in Seminoma-Associated Paraneoplastic Encephalitis.

N Engl J Med 2019 07;381(1):47-54

From the Department of Biochemistry and Biophysics (C.M.-B., B.D.O., S.E.V., H.A.S., K.C.Z., L.M.K., J.L.D.), the Weill Institute for Neurosciences (B.T., I.O.B., S.J. Pleasure, M.R.W.), the Department of Neurology (B.T., I.O.B., S.J. Pleasure, M.R.W.), and the Chan Zuckerberg Biohub (J.L.D.), University of California, San Francisco, San Francisco; and the Departments of Laboratory Medicine and Pathology (D.D., T.J.K., A.M., V.A.L., S.J. Pittock), Neurology (D.D., A.M., V.A.L., S.J. Pittock), and Immunology (V.A.L.), Mayo Clinic, Rochester, MN.

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http://dx.doi.org/10.1056/NEJMoa1816721DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6800027PMC
July 2019

Exploratory proteomic analysis implicates the alternative complement cascade in primary CNS vasculitis.

Neurology 2019 07 3;93(5):e433-e444. Epub 2019 Jul 3.

From the Departments of Biochemistry and Biophysics (C.M.-B., H.R., H.A.S., K.C.Z., J.L.D.), Pharmaceutical Chemistry (G.M.K., A.Y.), Pathology and Laboratory Medicine (T.T.), and Neurology (S.A.J., V.C.D., J.M.G., M.R.W.), University of California, San Francisco; Department of Rheumatology/Immunology (R.A.H.-A., L.H.C.), Cleveland Clinic, OH; Department of Neurology (M.P.G.), Boston Children's Hospital, MA; Division of Neurology (J.M.C.), Connecticut Children's Medical Center, Hartford; Division of Rheumatology (A.G.S.), University of Pennsylvania, Philadelphia; Kaiser Permanente (J.F.M.), San Francisco Medical Center; UCSF Weill Institute for Neurosciences (S.A.J., V.C.D., J.M.G., M.R.W.); and Chan Zuckerberg Biohub (J.L.D.), San Francisco, CA.

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http://dx.doi.org/10.1212/WNL.0000000000007850DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6693432PMC
July 2019

Clinical Metagenomic Sequencing for Diagnosis of Meningitis and Encephalitis.

N Engl J Med 2019 06;380(24):2327-2340

From the Departments of Neurology (M.R.W., V.D., S.A.J., F.C.C., J.M.G.), Biochemistry and Biophysics (H.A.S., K.C.Z., J.L.D.), Laboratory Medicine (S.A., G.Y., S.F., D.S., B.B., B.H., S.M., C.Y.C.), and Epidemiology and Biostatistics (J.N.), the Department of Medicine, Division of Infectious Diseases (C.L., C.Y.C.), the Department of Medicine, Division of Hospital Medicine (A.B.), and Weill Institute for Neurosciences (M.R.W., V.D., S.A.J., F.C.C., J.M.G.), University of California, San Francisco (UCSF), UCSF-Abbott Viral Diagnostics and Discovery Center (S.A., G.Y., S.F., D.S., B.B., C.Y.C.), the Chan Zuckerberg Biohub (C.L., J.L.D.), and Zuckerberg San Francisco General Hospital (B.H.), San Francisco, the School of Public Health, University of California, Berkeley, Berkeley (B.D.F.), Children's Hospital Los Angeles (S.N.N., J.B., J.D.B.), the Department of Medicine, Division of Infectious Diseases (J.M., M.C., T.V., P.R.A., J.D.K.), and the Departments of Neurology (P.M.V.) and Pathology and Laboratory Medicine (S.C., R.M.H.), University of California, Los Angeles, Los Angeles, and the Departments of Pathology and Laboratory Medicine (C.D.G., F.M., N.A.O., C.R.P.) and Neurological Surgery (L.L.Z.) and the Department of Internal Medicine, Division of Infectious Diseases (S.H.C., C.R.P.), University of California, Davis, Davis - all in California; the Children's National Medical Center and George Washington University School of Medicine, Washington, DC (R.L.D.); St. Jude Children's Research Hospital, Memphis, TN (R.D., G.M., R.H.); and Children's Hospital Colorado, Aurora (K.M., S.R.D.).

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http://dx.doi.org/10.1056/NEJMoa1803396DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6764751PMC
June 2019

METAGENOMIC NEXT-GENERATION SEQUENCING REVEALS MIAMIENSIS AVIDUS (CILIOPHORA: SCUTICOCILIATIDA) IN THE 2017 EPIZOOTIC OF LEOPARD SHARKS ( TRIAKIS SEMIFASCIATA) IN SAN FRANCISCO BAY, CALIFORNIA, USA.

J Wildl Dis 2019 04 5;55(2):375-386. Epub 2018 Oct 5.

1 Department of Biochemistry and Biophysics, University of California San Francisco, 1700 4th St., San Francisco, California 94158, USA.

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http://www.jwildlifedis.org/doi/10.7589/2018-04-097
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http://dx.doi.org/10.7589/2018-04-097DOI Listing
April 2019

Genome Sequence of a Divergent Avian Metapneumovirus from a Monk Parakeet ().

Microbiol Resour Announc 2019 Apr 18;8(16). Epub 2019 Apr 18.

Department of Biochemistry and Biophysics, University of California, San Francisco, California, USA

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http://genomea.asm.org/lookup/doi/10.1128/MRA.00284-19
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http://dx.doi.org/10.1128/MRA.00284-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6473149PMC
April 2019

Taxonomy of the order Bunyavirales: second update 2018.

Arch Virol 2019 Mar;164(3):927-941

Integrated Research Facility at Fort Detrick (IRF-Frederick), Division of Clinical Research (DCR), National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), B-8200 Research Plaza, Fort Detrick, Frederick, MD, 21702, USA.

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http://link.springer.com/10.1007/s00705-018-04127-3
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http://dx.doi.org/10.1007/s00705-018-04127-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6581445PMC
March 2019

Misinterpretation of Study Data-Reply.

JAMA Neurol 2019 01;76(1):113-114

Department of Biochemistry and Biophysics, University of California, San Francisco.

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http://archneur.jamanetwork.com/article.aspx?doi=10.1001/jam
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http://dx.doi.org/10.1001/jamaneurol.2018.3671DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6824193PMC
January 2019

Taxonomy of the family Arenaviridae and the order Bunyavirales: update 2018.

Authors:
Piet Maes Sergey V Alkhovsky Yīmíng Bào Martin Beer Monica Birkhead Thomas Briese Michael J Buchmeier Charles H Calisher Rémi N Charrel Il Ryong Choi Christopher S Clegg Juan Carlos de la Torre Eric Delwart Joseph L DeRisi Patrick L Di Bello Francesco Di Serio Michele Digiaro Valerian V Dolja Christian Drosten Tobiasz Z Druciarek Jiang Du Hideki Ebihara Toufic Elbeaino Rose C Gergerich Amethyst N Gillis Jean-Paul J Gonzalez Anne-Lise Haenni Jussi Hepojoki Udo Hetzel Thiện Hồ Ní Hóng Rakesh K Jain Petrus Jansen van Vuren Qi Jin Miranda Gilda Jonson Sandra Junglen Karen E Keller Alan Kemp Anja Kipar Nikola O Kondov Eugene V Koonin Richard Kormelink Yegor Korzyukov Mart Krupovic Amy J Lambert Alma G Laney Matthew LeBreton Igor S Lukashevich Marco Marklewitz Wanda Markotter Giovanni P Martelli Robert R Martin Nicole Mielke-Ehret Hans-Peter Mühlbach Beatriz Navarro Terry Fei Fan Ng Márcio Roberto Teixeira Nunes Gustavo Palacios Janusz T Pawęska Clarence J Peters Alexander Plyusnin Sheli R Radoshitzky Víctor Romanowski Pertteli Salmenperä Maria S Salvato Hélène Sanfaçon Takahide Sasaya Connie Schmaljohn Bradley S Schneider Yukio Shirako Stuart Siddell Tarja A Sironen Mark D Stenglein Nadia Storm Harikishan Sudini Robert B Tesh Ioannis E Tzanetakis Mangala Uppala Olli Vapalahti Nikos Vasilakis Peter J Walker Guópíng Wáng Lìpíng Wáng Yànxiăng Wáng Tàiyún Wèi Michael R Wiley Yuri I Wolf Nathan D Wolfe Zhìqiáng Wú Wénxìng Xú Li Yang Zuòkūn Yāng Shyi-Dong Yeh Yǒng-Zhèn Zhāng Yàzhōu Zhèng Xueping Zhou Chénxī Zhū Florian Zirkel Jens H Kuhn

Arch Virol 2018 Aug 21;163(8):2295-2310. Epub 2018 Apr 21.

Division of Clinical Research (DCR), Integrated Research Facility at Fort Detrick (IRF-Frederick), National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), B-8200 Research Plaza, Fort Detrick, Frederick, MD, 21702, USA.

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http://dx.doi.org/10.1007/s00705-018-3843-5DOI Listing
August 2018

Whole-Genome mRNA Gene Expression Differs Between Patients With and Without Delirium.

J Geriatr Psychiatry Neurol 2018 07 10;31(4):203-210. Epub 2018 Jul 10.

2 Department of Neurology, School of Medicine, University of California, San Francisco, San Francisco, CA, USA.

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http://dx.doi.org/10.1177/0891988718785774DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6817976PMC
July 2018

Avian keratin disorder of Alaska black-capped chickadees is associated with Poecivirus infection.

Virol J 2018 06 15;15(1):100. Epub 2018 Jun 15.

Department of Pathology, University of California, San Francisco, California, 94143, USA.

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http://dx.doi.org/10.1186/s12985-018-1008-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6003155PMC
June 2018

Metagenomic deep sequencing of aqueous fluid detects intraocular lymphomas.

Br J Ophthalmol 2018 01 9;102(1):6-8. Epub 2017 Nov 9.

Francis I Proctor Foundation, University of California, San Francisco, California, USA.

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http://dx.doi.org/10.1136/bjophthalmol-2017-311151DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5754869PMC
January 2018

Complete Genome Sequence of a Divergent Human Rhinovirus C Isolate from an Infant with Severe Community-Acquired Pneumonia in Colorado, USA.

Genome Announc 2017 Nov 30;5(48). Epub 2017 Nov 30.

Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, California, USA.

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http://dx.doi.org/10.1128/genomeA.01245-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5722057PMC
November 2017

Differential Disease Susceptibilities in Experimentally Reptarenavirus-Infected Boa Constrictors and Ball Pythons.

J Virol 2017 08 12;91(15). Epub 2017 Jul 12.

Chan Zuckerberg Biohub and the Department of Biochemistry & Biophysics, University of California, San Francisco, San Francisco, California, USA

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http://dx.doi.org/10.1128/JVI.00451-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5651717PMC
August 2017

Metagenomic DNA Sequencing for the Diagnosis of Intraocular Infections.

Ophthalmology 2017 08 16;124(8):1247-1248. Epub 2017 May 16.

Department of Biochemistry and Biophysics, University of California, San Francisco, California; Chan Zuckerberg Biohub, San Francisco, California. Electronic address:

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http://dx.doi.org/10.1016/j.ophtha.2017.03.045DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5533302PMC
August 2017

Possibility and Challenges of Conversion of Current Virus Species Names to Linnaean Binomials.

Syst Biol 2017 05;66(3):463-473

Integrated Research Facility at Fort Detrick, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Frederick, 21702 MD, USA.

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http://dx.doi.org/10.1093/sysbio/syw096DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5837305PMC
May 2017

Interaction between FMDV L and transcription factor ADNP is required for optimal viral replication.

Virology 2017 05 17;505:12-22. Epub 2017 Feb 17.

Plum Island Animal Disease Center (PIADC), North Atlantic Area, Agricultural Research Service US Department of Agriculture, Greenport, NY 11944, USA. Electronic address:

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http://dx.doi.org/10.1016/j.virol.2017.02.010DOI Listing
May 2017

MinorityReport, software for generalized analysis of causal genetic variants.

Malar J 2017 02 23;16(1):90. Epub 2017 Feb 23.

Department of Biochemistry and Biophysics, University of California San Francisco School of Medicine, 1700 4th St, QB3 Room 404, San Francisco, CA, 94158-2330, USA.

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http://dx.doi.org/10.1186/s12936-017-1730-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5324306PMC
February 2017

Neurologic Complications of Common Variable Immunodeficiency.

J Clin Immunol 2016 11 4;36(8):793-800. Epub 2016 Oct 4.

Division of Allergy and Immunology, University of California, San Francisco, 400 Parnassus Ave, San Francisco, CA, 94143, USA.

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http://dx.doi.org/10.1007/s10875-016-0336-8DOI Listing
November 2016

Novel Picornavirus Associated with Avian Keratin Disorder in Alaskan Birds.

mBio 2016 07 26;7(4). Epub 2016 Jul 26.

Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, California, USA Howard Hughes Medical Institute, Chevy Chase, Maryland, USA

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http://dx.doi.org/10.1128/mBio.00874-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4958255PMC
July 2016

Open Source Drug Discovery with the Malaria Box Compound Collection for Neglected Diseases and Beyond.

Authors:
Wesley C Van Voorhis John H Adams Roberto Adelfio Vida Ahyong Myles H Akabas Pietro Alano Aintzane Alday Yesmalie Alemán Resto Aishah Alsibaee Ainhoa Alzualde Katherine T Andrews Simon V Avery Vicky M Avery Lawrence Ayong Mark Baker Stephen Baker Choukri Ben Mamoun Sangeeta Bhatia Quentin Bickle Lotfi Bounaadja Tana Bowling Jürgen Bosch Lauren E Boucher Fabrice F Boyom Jose Brea Marian Brennan Audrey Burton Conor R Caffrey Grazia Camarda Manuela Carrasquilla Dee Carter Maria Belen Cassera Ken Chih-Chien Cheng Worathad Chindaudomsate Anthony Chubb Beatrice L Colon Daisy D Colón-López Yolanda Corbett Gregory J Crowther Noemi Cowan Sarah D'Alessandro Na Le Dang Michael Delves Joseph L DeRisi Alan Y Du Sandra Duffy Shimaa Abd El-Salam El-Sayed Michael T Ferdig José A Fernández Robledo David A Fidock Isabelle Florent Patrick V T Fokou Ani Galstian Francisco Javier Gamo Suzanne Gokool Ben Gold Todd Golub Gregory M Goldgof Rajarshi Guha W Armand Guiguemde Nil Gural R Kiplin Guy Michael A E Hansen Kirsten K Hanson Andrew Hemphill Rob Hooft van Huijsduijnen Takaaki Horii Paul Horrocks Tyler B Hughes Christopher Huston Ikuo Igarashi Katrin Ingram-Sieber Maurice A Itoe Ajit Jadhav Amornrat Naranuntarat Jensen Laran T Jensen Rays H Y Jiang Annette Kaiser Jennifer Keiser Thomas Ketas Sebastien Kicka Sunyoung Kim Kiaran Kirk Vidya P Kumar Dennis E Kyle Maria Jose Lafuente Scott Landfear Nathan Lee Sukjun Lee Adele M Lehane Fengwu Li David Little Liqiong Liu Manuel Llinás Maria I Loza Aristea Lubar Leonardo Lucantoni Isabelle Lucet Louis Maes Dalu Mancama Nuha R Mansour Sandra March Sheena McGowan Iset Medina Vera Stephan Meister Luke Mercer Jordi Mestres Alvine N Mfopa Raj N Misra Seunghyun Moon John P Moore Francielly Morais Rodrigues da Costa Joachim Müller Arantza Muriana Stephen Nakazawa Hewitt Bakela Nare Carl Nathan Nathalie Narraidoo Sujeevi Nawaratna Kayode K Ojo Diana Ortiz Gordana Panic George Papadatos Silvia Parapini Kailash Patra Ngoc Pham Sarah Prats David M Plouffe Sally-Ann Poulsen Anupam Pradhan Celia Quevedo Ronald J Quinn Christopher A Rice Mohamed Abdo Rizk Andrea Ruecker Robert St Onge Rafaela Salgado Ferreira Jasmeet Samra Natalie G Robinett Ulrich Schlecht Marjorie Schmitt Filipe Silva Villela Francesco Silvestrini Robert Sinden Dennis A Smith Thierry Soldati Andreas Spitzmüller Serge Maximilian Stamm David J Sullivan William Sullivan Sundari Suresh Brian M Suzuki Yo Suzuki S Joshua Swamidass Donatella Taramelli Lauve R Y Tchokouaha Anjo Theron David Thomas Kathryn F Tonissen Simon Townson Abhai K Tripathi Valentin Trofimov Kenneth O Udenze Imran Ullah Cindy Vallieres Edgar Vigil Joseph M Vinetz Phat Voong Vinh Hoan Vu Nao-Aki Watanabe Kate Weatherby Pamela M White Andrew F Wilks Elizabeth A Winzeler Edward Wojcik Melanie Wree Wesley Wu Naoaki Yokoyama Paul H A Zollo Nada Abla Benjamin Blasco Jeremy Burrows Benoît Laleu Didier Leroy Thomas Spangenberg Timothy Wells Paul A Willis

PLoS Pathog 2016 07 28;12(7):e1005763. Epub 2016 Jul 28.

Medicines for Malaria Venture, Geneva, Switzerland.

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http://dx.doi.org/10.1371/journal.ppat.1005763DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4965013PMC
July 2016

Multiplexed Metagenomic Deep Sequencing To Analyze the Composition of High-Priority Pathogen Reagents.

mSystems 2016 Jul-Aug;1(4). Epub 2016 Jul 19.

Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, California, USA; Howard Hughes Medical Institute, Chevy Chase, Maryland, USA.

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http://dx.doi.org/10.1128/mSystems.00058-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5069959PMC
July 2016

Draft Genome Sequences of Ciliovirus and Brinovirus from San Francisco Wastewater.

Genome Announc 2015 Jun 25;3(3). Epub 2015 Jun 25.

Department of Biochemistry and Biophysics, UCSF, San Francisco, California, USA Howard Hughes Medical Institute, UCSF, San Francisco, California, USA.

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http://dx.doi.org/10.1128/genomeA.00651-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4481282PMC
June 2015

Profile hidden Markov models for the detection of viruses within metagenomic sequence data.

PLoS One 2014 20;9(8):e105067. Epub 2014 Aug 20.

Departments of Medicine, Biochemistry and Biophysics, and Microbiology, University of California San Francisco, San Francisco, California, United States of America; Howard Hughes Medical Institute, Bethesda, Maryland, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0105067PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4139300PMC
May 2015

Widespread recombination, reassortment, and transmission of unbalanced compound viral genotypes in natural arenavirus infections.

PLoS Pathog 2015 May 20;11(5):e1004900. Epub 2015 May 20.

Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, California, United States of America; Howard Hughes Medical Institute, Chevy Chase, Maryland, United States of America.

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http://dx.doi.org/10.1371/journal.ppat.1004900DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4438980PMC
May 2015

Taxonomic reorganization of the family Bornaviridae.

Arch Virol 2015 Feb 2;160(2):621-32. Epub 2014 Dec 2.

Integrated Research Facility at Fort Detrick (IRF-Frederick), Division of Clinical Research (DCR), National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), B-8200 Research Plaza, Fort Detrick, MD, USA,

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http://dx.doi.org/10.1007/s00705-014-2276-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4315759PMC
February 2015

A chemical rescue screen identifies a Plasmodium falciparum apicoplast inhibitor targeting MEP isoprenoid precursor biosynthesis.

Antimicrob Agents Chemother 2015 Jan 3;59(1):356-64. Epub 2014 Nov 3.

Department of Biochemistry, Stanford Medical School, Stanford, California, USA Department of Pathology, Stanford Medical School, Stanford, California, USA Department of Microbiology and Immunology, Stanford Medical School, Stanford, California, USA

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http://dx.doi.org/10.1128/AAC.03342-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4291372PMC
January 2015

Genome-wide regulatory dynamics of translation in the asexual blood stages.

Elife 2014 Dec 10;3. Epub 2014 Dec 10.

Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, United States.

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http://dx.doi.org/10.7554/eLife.04106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4371882PMC
December 2014

Splenic red pulp macrophages produce type I interferons as early sentinels of malaria infection but are dispensable for control.

PLoS One 2012 29;7(10):e48126. Epub 2012 Oct 29.

Division of Experimental Medicine, Department of Medicine, University of California San Francisco, San Francisco, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0048126PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3483282PMC
August 2014

A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples.

Genome Res 2014 Jul 4;24(7):1180-92. Epub 2014 Jun 4.

Department of Laboratory Medicine, UCSF, San Francisco, California 94107, USA; UCSF-Abbott Viral Diagnostics and Discovery Center, San Francisco, California 94107, USA; Department of Medicine, Division of Infectious Diseases, UCSF, San Francisco, California 94143, USA.

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http://dx.doi.org/10.1101/gr.171934.113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4079973PMC
July 2014

How duplicated transcription regulators can diversify to govern the expression of nonoverlapping sets of genes.

Genes Dev 2014 Jun 29;28(12):1272-7. Epub 2014 May 29.

Department of Microbiology and Immunology, University of California at San Francisco, San Francisco, California 94102, USA; Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, California 94102, USA;

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http://genesdev.cshlp.org/cgi/doi/10.1101/gad.242271.114
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http://dx.doi.org/10.1101/gad.242271.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4066398PMC
June 2014

Actionable diagnosis of neuroleptospirosis by next-generation sequencing.

N Engl J Med 2014 Jun 4;370(25):2408-17. Epub 2014 Jun 4.

From the Departments of Biochemistry and Biophysics (M.R.W., J.L.D.), Neurology (M.R.W.), and Laboratory Medicine (S.N.N., E.S., G.Y., S.S., S.F., S.M., C.Y.C.), and the Department of Medicine, Division of Infectious Diseases (C.Y.C.), University of California, San Francisco (UCSF), and UCSF-Abbott Viral Diagnostics and Discovery Center (S.N.N., E.S., G.Y., S.S., S.F., S.M., C.Y.C.) - both in San Francisco; the Department of Medicine, Division of Allergy and Immunology (M.B., H.B., J.E.G.), and the Departments of Pathology and Laboratory Medicine (S.M.S., K.D.R.) and Pediatrics (T.L.M., C.M.S., S.L.H., J.E.G.), University of Wisconsin, Madison; the Experimental Transplantation and Immunology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD (R.S., E.G., F.C.); the Departments of Pediatrics and Immunology, Division of Allergy and Immunology, Duke University, Durham, NC (R.H.B.); and the Centers for Disease Control and Prevention, Atlanta (R.G.).

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http://www.nejm.org/doi/abs/10.1056/NEJMoa1401268
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http://dx.doi.org/10.1056/NEJMoa1401268DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4134948PMC
June 2014

Krüppel mediates the selective rebalancing of ion channel expression.

Neuron 2014 May;82(3):537-44

Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.neuron.2014.03.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4104505PMC
May 2014

The kinase regulator mob1 acts as a patterning protein for stentor morphogenesis.

PLoS Biol 2014 May 13;12(5):e1001861. Epub 2014 May 13.

Department of Biochemistry and Biophysics, University of California, San Francisco, California, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1001861DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4019465PMC
May 2014

Structural characterization of the glycoprotein GP2 core domain from the CAS virus, a novel arenavirus-like species.

J Mol Biol 2014 Apr 12;426(7):1452-68. Epub 2013 Dec 12.

Department of Biochemistry, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA. Electronic address:

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3951589PMC
April 2014

Structure of the transcriptional network controlling white-opaque switching in Candida albicans.

Mol Microbiol 2013 Oct 25;90(1):22-35. Epub 2013 Aug 25.

Department of Microbiology and Immunology, University of California San Francisco, San Francisco, CA, 94158, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3888361PMC
October 2013

PRICE: software for the targeted assembly of components of (Meta) genomic sequence data.

G3 (Bethesda) 2013 May 20;3(5):865-80. Epub 2013 May 20.

Department of Biochemistry and Biophysics, University of California, San Francisco, California 94044, USA.

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http://dx.doi.org/10.1534/g3.113.005967DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3656733PMC
May 2013

Identification and characterization of a previously undescribed family of sequence-specific DNA-binding domains.

Proc Natl Acad Sci U S A 2013 May 22;110(19):7660-5. Epub 2013 Apr 22.

Departments of Microbiology and Immunology and Biochemistry and Biophysics, University of California, San Francisco, CA 94158, USA.

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May 2013

Identification and manipulation of the molecular determinants influencing poliovirus recombination.

PLoS Pathog 2013 Feb 7;9(2):e1003164. Epub 2013 Feb 7.

Howard Hughes Medical Institute, Bethesda, Maryland, United States of America.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3567174PMC
February 2013

Basic leucine zipper transcription factor Hac1 binds DNA in two distinct modes as revealed by microfluidic analyses.

Proc Natl Acad Sci U S A 2012 Nov 10;109(45):E3084-93. Epub 2012 Oct 10.

Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158, USA.

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November 2012