George Weinstock

George Weinstock

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George Weinstock

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MSC: a metagenomic sequence classification algorithm.

Bioinformatics 2019 Sep;35(17):2932-2940

Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA.

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http://dx.doi.org/10.1093/bioinformatics/bty1071DOI Listing
September 2019

Oral Microbiome in HIV-Infected Women: Shifts in the Abundance of Pathogenic and Beneficial Bacteria Are Associated with Aging, HIV Load, CD4 Count, and Antiretroviral Therapy.

AIDS Res Hum Retroviruses 2019 Mar 23;35(3):276-286. Epub 2018 Jul 23.

1 Department of Medical Microbiology and Immunology, School of Medicine, University of California, Davis, Davis, California.

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http://www.liebertpub.com/doi/10.1089/aid.2017.0200
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http://dx.doi.org/10.1089/AID.2017.0200DOI Listing
March 2019

Intermittent Fasting Confers Protection in CNS Autoimmunity by Altering the Gut Microbiota.

Cell Metab 2018 Jun;27(6):1222-1235.e6

Department of Neurology, Washington University School of Medicine, Campus Box 8111, 660 S. Euclid Avenue, St. Louis, MO 63110, USA; Hope Center for Neurological Disorders, Washington University School of Medicine, St Louis, MO, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S15504131183031
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http://dx.doi.org/10.1016/j.cmet.2018.05.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6460288PMC
June 2018

Genome Sequence of Acetomicrobium hydrogeniformans OS1.

Genome Announc 2018 Jun 28;6(26). Epub 2018 Jun 28.

Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, California, USA

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http://genomea.asm.org/lookup/doi/10.1128/genomeA.00581-18
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http://dx.doi.org/10.1128/genomeA.00581-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6025917PMC
June 2018

Meta-analysis of the lung microbiota in pulmonary tuberculosis.

Tuberculosis (Edinb) 2018 03 22;109:102-108. Epub 2018 Feb 22.

Texas Tech University Health Sciences Center, El Paso, TX, USA. Electronic address:

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http://dx.doi.org/10.1016/j.tube.2018.02.006DOI Listing
March 2018

Proteomics and metabolomics for analysis of the dynamics of microbiota.

Expert Rev Proteomics 2018 02 28;15(2):101-104. Epub 2017 Dec 28.

d Data Analytics Unit , bioMérieux Inc , Durham , NC , USA.

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https://www.tandfonline.com/doi/full/10.1080/14789450.2018.1
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http://dx.doi.org/10.1080/14789450.2018.1421073DOI Listing
February 2018

Community characteristics of the gut microbiomes of competitive cyclists.

Microbiome 2017 08 10;5(1):98. Epub 2017 Aug 10.

The Jackson Laboratory for Genomic Medicine, 10 Discovery Drive, Farmington, CT, 06032, USA.

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http://dx.doi.org/10.1186/s40168-017-0320-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5553673PMC
August 2017

Validation of Metagenomic Next-Generation Sequencing Tests for Universal Pathogen Detection.

Arch Pathol Lab Med 2017 Jun 7;141(6):776-786. Epub 2017 Feb 7.

From the Department of Pathology, University of Utah, and the Institute for Clinical and Experimental Pathology, ARUP Laboratories, Salt Lake City, Utah (Dr Schlaberg); the Departments of Laboratory Medicine and Medicine, University of California, San Francisco (Dr Chiu); the Departments of Pathology and Laboratory Medicine, University of California, San Francisco (Dr Miller); the Department of Laboratory Medicine, Cleveland Clinic, Cleveland, Ohio (Dr Procop); and The Jackson Laboratory for Genomic Medicine, Farmington, Connecticut (Dr Weinstock).

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http://dx.doi.org/10.5858/arpa.2016-0539-RADOI Listing
June 2017

Ceftaroline-Resistant, Daptomycin-Tolerant, and Heterogeneous Vancomycin-Intermediate Methicillin-Resistant Staphylococcus aureus Causing Infective Endocarditis.

Antimicrob Agents Chemother 2017 03 23;61(3). Epub 2017 Feb 23.

Department of Medicine, Division of HIV, Infectious Diseases and Global Medicine, Zuckerberg San Francisco General Hospital, University of California San Francisco, San Francisco, California, USA

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http://dx.doi.org/10.1128/AAC.01235-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5328541PMC
March 2017

Lung microbiome in human immunodeficiency virus infection.

Transl Res 2017 01 18;179:97-107. Epub 2016 Jul 18.

Department of Medicine, University of Arizona, Tucson, Ariz.

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http://dx.doi.org/10.1016/j.trsl.2016.07.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5164960PMC
January 2017

Isolation of Methicillin-resistant Staphylococcus aureus and Multidrug-resistant Elizabethkingia meningoseptica From Neonates Within Minutes of Birth.

Pediatr Infect Dis J 2017 01;36(1):123-124

Vaccines and Immunity, Medical Research Council Unit The Gambia Fajara, Gambia London School of Hygiene and Tropical Medicine London, United Kingdom The University of Manchester Manchester, United Kingdom The Jackson Laboratory for Genomic Medicine Farmington, Connecticut Vaccines and Immunity, Medical Research Council Unit The Gambia Fajara, Gambia London School of Hygiene and Tropical Medicine London, United Kingdom.

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http://dx.doi.org/10.1097/INF.0000000000001368DOI Listing
January 2017

Genome Sequences of 15 Gardnerella vaginalis Strains Isolated from the Vaginas of Women with and without Bacterial Vaginosis.

Genome Announc 2016 Sep 29;4(5). Epub 2016 Sep 29.

Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, Missouri, USA Department of Obstetrics and Gynecology, Washington University School of Medicine, St. Louis, Missouri, USA

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5043544PMC
http://dx.doi.org/10.1128/genomeA.00879-16DOI Listing
September 2016

Effects of Walnut Consumption on Colon Carcinogenesis and Microbial Community Structure.

Cancer Prev Res (Phila) 2016 Aug 23;9(8):692-703. Epub 2016 May 23.

University of Connecticut Health Center, Farmington, Connecticut.

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http://dx.doi.org/10.1158/1940-6207.CAPR-16-0026DOI Listing
August 2016

Gut bacteria dysbiosis and necrotising enterocolitis in very low birthweight infants: a prospective case-control study.

Lancet 2016 May 9;387(10031):1928-36. Epub 2016 Mar 9.

Department of Pediatrics, Washington University in St Louis School of Medicine, St Louis, MO, USA; Department of Molecular Microbiology, Washington University in St Louis School of Medicine, St Louis, MO, USA. Electronic address:

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http://dx.doi.org/10.1016/S0140-6736(16)00081-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5553277PMC
May 2016

The importance of the microbiome in epidemiologic research.

Ann Epidemiol 2016 05 7;26(5):301-5. Epub 2016 Apr 7.

The Jackson Laboratory for Genomic Medicine, Farmington, CT.

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http://dx.doi.org/10.1016/j.annepidem.2016.03.008DOI Listing
May 2016

The real cost of sequencing: scaling computation to keep pace with data generation.

Genome Biol 2016 Mar 23;17:53. Epub 2016 Mar 23.

Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, 06520, USA.

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http://dx.doi.org/10.1186/s13059-016-0917-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4806511PMC
March 2016

Longitudinal analysis of the premature infant intestinal microbiome prior to necrotizing enterocolitis: a case-control study.

PLoS One 2015 5;10(3):e0118632. Epub 2015 Mar 5.

Department of Newborn Medicine, Brigham and Women's Hospital, Boston, MA, United States of America; Department of Nursing, Brigham and Women's Hospital, Boston, MA, United States of America; Harvard Medical School, Boston, MA, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0118632PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4351051PMC
February 2016

Metagenomic Approach for Identification of the Pathogens Associated with Diarrhea in Stool Specimens.

J Clin Microbiol 2016 Feb 4;54(2):368-75. Epub 2015 Dec 4.

McDonnell Genome Institute, Washington University School of Medicine, St. Louis, Missouri, USA

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http://dx.doi.org/10.1128/JCM.01965-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4733167PMC
February 2016

Longitudinal Prediction of the Infant Gut Microbiome with Dynamic Bayesian Networks.

Sci Rep 2016 Feb 8;6:20359. Epub 2016 Feb 8.

Channing Division of Network Medicine, Brigham and Women's Hospital, Boston, MA.

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http://dx.doi.org/10.1038/srep20359DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4745046PMC
February 2016

Inactivation of SAM-methyltransferase is the mechanism of attenuation of a historic louse borne typhus vaccine strain.

PLoS One 2014 20;9(11):e113285. Epub 2014 Nov 20.

Department of Pathology, University of Texas Medical Branch, Galveston, Texas, 77555-0609, United States of America; School of Public Health, Shandong University, Jinan, Shandong, 250012, China.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0113285PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4239044PMC
January 2016

A Glimpse of Microbial Power in Preventive Medicine.

JAMA Pediatr 2016 Jan;170(1):11

The Jackson Laboratory for Genomic Medicine, Farmington, Connecticut.

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http://dx.doi.org/10.1001/jamapediatrics.2015.3246DOI Listing
January 2016

NIH working group report-using genomic information to guide weight management: From universal to precision treatment.

Obesity (Silver Spring) 2016 Jan;24(1):14-22

Division of Cancer Control and Population Sciences, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA.

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http://dx.doi.org/10.1002/oby.21381DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4689320PMC
January 2016

Parallel Epidemics of Community-Associated Methicillin-Resistant Staphylococcus aureus USA300 Infection in North and South America.

J Infect Dis 2015 Dec 5;212(12):1874-82. Epub 2015 Jun 5.

Division of Infectious Diseases, Department of Internal Medicine Department of Microbiology and Molecular Genetics, University of Texas Medical School at Houston Molecular Genetics and Antimicrobial Resistance Unit, International Center for Microbial Genomics, Universidad El Bosque, Bogotá, Colombia.

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http://dx.doi.org/10.1093/infdis/jiv320DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4655856PMC
December 2015

Emergence of Rotavirus G12P[8] in St. Louis During the 2012-2013 Rotavirus Season.

J Pediatric Infect Dis Soc 2015 Dec 15;4(4):e84-9. Epub 2014 Sep 15.

The Department of Pediatrics.

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http://dx.doi.org/10.1093/jpids/piu090DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4681384PMC
December 2015

Discriminatory Indices of Typing Methods for Epidemiologic Analysis of Contemporary Staphylococcus aureus Strains.

Medicine (Baltimore) 2015 Sep;94(37):e1534

From the Department of Pediatrics (MR, PGH, TW, C-ADB, SAF); Department of Pediatrics, McDonnell Genome Institute (TW, HG, ES, GMW); Department of Pathology and Immunology at Washington University School of Medicine, 660 S. Euclid Ave., St. Louis, MI 63110 (C-ADB); Department of Medicine at Emory University School of Medicine, 201 Dowman Dr., Atlanta, GA 30322 (SWS, EC); Southern Illinois University School of Medicine, 801 North Rutledge St., Springfield, IL 62702 (MR); and Jackson Laboratory for Genomic Medicine, 10 Discovery Dr., Farmington, CT 06032 (ES, GMW).

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http://dx.doi.org/10.1097/MD.0000000000001534DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4635816PMC
September 2015

mBLAST: Keeping up with the sequencing explosion for (meta)genome analysis.

J Data Mining Genomics Proteomics 2015 Aug 31;4(3). Epub 2013 Jul 31.

The Genome Institute, Washington University, St. Louis, MO 63108, United States ; Department of Genetics, Washington University School of Medicine, St. Louis, MO 63108, United States ; Department of Internal Medicine, Washington University School of Medicine, St. Louis, MO 63108, United States.

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http://dx.doi.org/10.4172/2153-0602.1000135DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4612494PMC
August 2015

Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment.

Nat Commun 2015 Jun 30;6:7486. Epub 2015 Jun 30.

1] Department of Medicine, New York University School of Medicine, New York, New York 10016, USA [2] Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA [3] New York Harbor Department of Veterans Affairs Medical Center, New York, New York 10010, USA.

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http://dx.doi.org/10.1038/ncomms8486DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4491183PMC
June 2015

Selection of models for the analysis of risk-factor trees: leveraging biological knowledge to mine large sets of risk factors with application to microbiome data.

Bioinformatics 2015 May 6;31(10):1607-13. Epub 2015 Jan 6.

Division of Statistical Genomics, Washington University School of Medicine, St. Louis, MO, USA, Department of Biology, Washington University, St. Louis, MO, USA, The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA and Department of Pediatrics, Medical College of Wisconsin, Milwaukee, WI, USA.

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http://dx.doi.org/10.1093/bioinformatics/btu855DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4426830PMC
May 2015

High-resolution quantification of hepatitis C virus genome-wide mutation load and its correlation with the outcome of peginterferon-alpha2a and ribavirin combination therapy.

PLoS One 2014 20;9(6):e100131. Epub 2014 Jun 20.

Division of Gastroenterology & Hepatology, Department of Internal Medicine, Saint Louis University School of Medicine, St. Louis, Missouri, United States of America; Saint Louis University Liver Center, Saint Louis University School of Medicine, St. Louis, Missouri, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0100131PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4065037PMC
February 2015

A multi-megabase copy number gain causes maternal transmission ratio distortion on mouse chromosome 2.

PLoS Genet 2015 Feb 13;11(2):e1004850. Epub 2015 Feb 13.

Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America; Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America; Carolina Center for Genome Science, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America.

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https://dx.plos.org/10.1371/journal.pgen.1004850
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http://dx.doi.org/10.1371/journal.pgen.1004850DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4334553PMC
February 2015

Phenotypic and genotypic analysis of Clostridium difficile isolates: a single-center study.

J Clin Microbiol 2014 Dec 1;52(12):4260-6. Epub 2014 Oct 1.

Department of Medicine, Washington University School of Medicine, St. Louis, Missouri, USA

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http://dx.doi.org/10.1128/JCM.02115-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4313296PMC
December 2014

The conjunctival microbiome in health and trachomatous disease: a case control study.

Genome Med 2014 15;6(11):99. Epub 2014 Nov 15.

Department of Clinical Research, London School of Hygiene and Tropical Medicine, London, WC1E 7HT UK ; Disease Control and Elimination Theme, Medical Research Council Unit, Fajara, POB273 The Gambia.

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http://genomemedicine.com/content/pdf/s13073-014-0099-x.pdf
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http://genomemedicine.biomedcentral.com/articles/10.1186/s13
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http://dx.doi.org/10.1186/s13073-014-0099-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256740PMC
December 2014

Microbial sequencing to improve individual and population health.

Genome Med 2014 19;6(11):103. Epub 2014 Nov 19.

The Jackson Laboratory for Genomic Medicine, At the University of Connecticut Health Center, Administrative Services Building, 263 Farmington Ave, Farmington, CT 06030 USA.

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http://dx.doi.org/10.1186/s13073-014-0103-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4262389PMC
December 2014

Next-generation pathogen genomics.

Genome Biol 2014 Nov 19;15(11):528. Epub 2014 Nov 19.

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http://dx.doi.org/10.1186/s13059-014-0528-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4283783PMC
November 2014

High-resolution genetic mapping in the diversity outbred mouse population identifies Apobec1 as a candidate gene for atherosclerosis.

G3 (Bethesda) 2014 Oct 23;4(12):2353-63. Epub 2014 Oct 23.

Department of Genetics, University of North Carolina Chapel Hill, North Carolina 27599 Nutrition Research Institute, University of North Carolina Kannapolis, North Carolina 28081 Department of Nutrition, University of North Carolina Chapel Hill, North Carolina 27599

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http://g3journal.org/lookup/doi/10.1534/g3.114.014704
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http://dx.doi.org/10.1534/g3.114.014704DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4267931PMC
October 2014

CcpA is important for growth and virulence of Enterococcus faecium.

Infect Immun 2014 Sep 9;82(9):3580-7. Epub 2014 Jun 9.

Division of Infectious Diseases, Department of Internal Medicine, University of Texas Medical School at Houston, Houston, Texas, USA Center for the Study of Emerging and Re-Emerging Pathogens, University of Texas Medical School at Houston, Houston, Texas, USA Department of Microbiology and Molecular Genetics, University of Texas Medical School at Houston, Houston, Texas, USA

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http://dx.doi.org/10.1128/IAI.01911-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4187825PMC
September 2014

Characterization of mutations in the PAS domain of the EvgS sensor kinase selected by laboratory evolution for acid resistance in Escherichia coli.

Mol Microbiol 2014 Sep 24;93(5):911-27. Epub 2014 Jul 24.

Institute of Microbiology and Infection, School of Biosciences, University of Birmingham, Birmingham, B15 2TT, UK; Drug Delivery, Disposition & Dynamics, Monash Institute of Pharmaceutical Sciences, 381 Royal Parade, Parkville, 3062, Vic., Australia.

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http://dx.doi.org/10.1111/mmi.12704DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4283999PMC
September 2014

A dominant mutation in hexokinase 1 (HK1) causes retinitis pigmentosa.

Invest Ophthalmol Vis Sci 2014 Sep 4;55(11):7147-58. Epub 2014 Sep 4.

Human Genetics Center, University of Texas Health Science Center, Houston, Texas, United States Department of Ophthalmology and Visual Sciences, University of Texas Health Science Center, Houston, Texas, United States.

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http://dx.doi.org/10.1167/iovs.14-15419DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4224580PMC
September 2014

Whole-genome analyses of Enterococcus faecium isolates with diverse daptomycin MICs.

Antimicrob Agents Chemother 2014 Aug 27;58(8):4527-34. Epub 2014 May 27.

Molecular Genetics and Antimicrobial Resistance Unit, Universidad El Bosque, Bogotá, Colombia Department of Internal Medicine, Division of Infectious Diseases, University of Texas Medical School at Houston, Houston, Texas, USA

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http://dx.doi.org/10.1128/AAC.02686-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4136017PMC
August 2014

Transferable vancomycin resistance in a community-associated MRSA lineage.

N Engl J Med 2014 Apr;370(16):1524-31

From the Department of Pathology, Division of Microbiology of the Central Laboratory (LIM 03) and Department of Infectious Disease (LIM 54), Hospital das Clínicas da Faculdade de Medicina da Universidade de São Paulo, São Paulo (F.R., T.S.R.D.G., A.D., D.B., I.M.H.); Molecular Genetics and Antimicrobial Resistance Unit, Universidad El Bosque, Bogota (L.D., D.P., S.R., J.R., L.P.C., C.A.A.), and Centro Internacional de Entrenamiento e Investigaciones Medicas (CIDEIM), Cali (A.H.-R.) - both in Colombia; Clinica Alemana de Santiago, Universidad del Desarrollo, Santiago, Chile (J.M.M.); the Department of Internal Medicine, Division of Infectious Diseases (L.D., D.P., T.T.T., J.R., J.M.M., A.H.-R., B.E.M, C.A.A.), and the Department of Microbiology and Molecular Genetics (B.E.M., C.A.A.), University of Texas Medical School at Houston, and the University of Houston College of Pharmacy (T.T.T.) - both in Houston; the Genome Institute, Washington University at St. Louis, St. Louis (A.W., Y.Z., G.M.W.); and Sackler Institute for Comparative Genomics, American Museum of Natural History (A.N., P.J.P.), and Division of Pediatric Infectious Diseases, Columbia University (G.X., P.J.P.) - both in New York.

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http://dx.doi.org/10.1056/NEJMoa1303359DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4112484PMC
April 2014