Samuel V Angiuoli

Summary

Affiliation: University of Maryland
Country: USA

Publications

  1. ncbi Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species
    Claudio Donati
    Novartis Vaccines and Diagnostics, Via Fiorentina 1, 53100 Siena, Italy
    Genome Biol 11:R107. 2010
  2. ncbi Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation
    Samuel V Angiuoli
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA
    OMICS 12:137-41. 2008
  3. ncbi Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing
    Samuel V Angiuoli
    Institute for Genome Sciences, University of Maryland Baltimore, Baltimore, Maryland, United States of America
    PLoS ONE 6:e26624. 2011
  4. ncbi CloVR: a virtual machine for automated and portable sequence analysis from the desktop using cloud computing
    Samuel V Angiuoli
    Institute for Genome Sciences IGS, University of Maryland School of Medicine, Baltimore, Maryland, USA
    BMC Bioinformatics 12:356. 2011
  5. ncbi A comparative genomic analysis of diverse clonal types of enterotoxigenic Escherichia coli reveals pathovar-specific conservation
    Jason W Sahl
    University of Maryland School of Medicine, Institute for Genome Sciences, Baltimore, MD, USA
    Infect Immun 79:950-60. 2011
  6. ncbi Using Sybil for interactive comparative genomics of microbes on the web
    David R Riley
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    Bioinformatics 28:160-6. 2012
  7. ncbi Ergatis: a web interface and scalable software system for bioinformatics workflows
    Joshua Orvis
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    Bioinformatics 26:1488-92. 2010
  8. ncbi Comparative genomics of the neglected human malaria parasite Plasmodium vivax
    Jane M Carlton
    The Institute for Genomic Research J Craig Venter Institute, 9704 Medical Research Drive, Rockville, Maryland 20850, USA
    Nature 455:757-63. 2008
  9. ncbi Sybil: methods and software for multiple genome comparison and visualization
    Jonathan Crabtree
    Institute for Genomic Research, Rockville, MD, USA
    Methods Mol Biol 408:93-108. 2007
  10. ncbi Comparative genomics of emerging human ehrlichiosis agents
    Julie C Dunning Hotopp
    The Institute for Genomic Research, Rockville, Maryland, USA
    PLoS Genet 2:e21. 2006

Collaborators

  • W Florian Fricke
  • William Klimke
  • Herve Tettelin
  • Joshua Orvis
  • Dawn Field
  • David A Rasko
  • Guy R Cochrane
  • Jeremy D Selengut
  • Derrick E Fouts
  • S L Salzberg
  • Christian J Stoeckert
  • Nikhat Zafar
  • Jane Carlton
  • Claire M Fraser
  • Julie C Dunning Hotopp
  • Jonathan Crabtree
  • David R Riley
  • Jason W Sahl
  • Claudio Donati
  • Hoda Khouri
  • Sean C Daugherty
  • Heather Forberger
  • Ramana Madupu
  • Lauren M Brinkac
  • Daniel H Haft
  • Owen White
  • Robert J Dodson
  • Karen E Nelson
  • Julia C Redman
  • Halvor Sommerfelt
  • Hans Steinsland
  • James P Nataro
  • Nicholas J Croucher
  • N Luisa Hiller
  • Antonello Covacci
  • Vega Masignani
  • Stephen D Bentley
  • Alessandro Muzzi
  • Rino Rappuoli
  • Garth D Ehrlich
  • Marco Oggioni
  • Tim J Mitchell
  • Morgens Kilian
  • E Richard Moxon
  • Fen Z Hu
  • Jennifer R Wortman
  • Owen R White
  • Rekha Seshadri
  • M J Rosovitz
  • Faiza Benahmed
  • Hua Niu
  • Michelle Gwinn
  • Jonathan Eisen
  • Matthew Lewis
  • Chunbin Zhang
  • Stephanie Mulligan
  • Quan Lin
  • Liwei Zhou
  • Jonathan A Eisen
  • William Nelson
  • Rebecca Halpin
  • Steven A Sullivan
  • Mingqun Lin
  • Qinghu Ren
  • Yasuko Rikihisa
  • Teresa R Utterback
  • Anthony S Durkin
  • Norio Ohashi
  • Martin Wu
  • Jeffrey Robinson
  • Shannon Smith
  • Jaideep Sundaram
  • Ning Zhi
  • Tanja Davidsen
  • Bao Tran
  • Robert T Deboy
  • Ian T Paulsen
  • Gaylen A Uhlich
  • James F Kolonay
  • William C Nelson
  • Jeremy Peterson
  • Steven R Gill
  • Nadia Fedorova
  • Darrell O Bayles
  • Laura D Wonderling
  • Sophia Kathariou
  • Susan Van Aken
  • William Nierman
  • Emmanuel F Mongodin
  • A Scott Durkin

Detail Information

Publications11

  1. ncbi Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species
    Claudio Donati
    Novartis Vaccines and Diagnostics, Via Fiorentina 1, 53100 Siena, Italy
    Genome Biol 11:R107. 2010
    ..Streptococcus pneumoniae is one of the most important causes of microbial diseases in humans. The genomes of 44 diverse strains of S. pneumoniae were analyzed and compared with strains of non-pathogenic streptococci of the Mitis group...
  2. ncbi Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation
    Samuel V Angiuoli
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA
    OMICS 12:137-41. 2008
    ..In addition, there is no central repository to store and disseminate procedures and protocols for genome annotation. We highlight the importance of SOPs for genome annotation and endorse an online repository of SOPs...
  3. ncbi Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing
    Samuel V Angiuoli
    Institute for Genome Sciences, University of Maryland Baltimore, Baltimore, Maryland, United States of America
    PLoS ONE 6:e26624. 2011
    ..Cloud computing services have been discussed as potential new bioinformatics support systems but have not been evaluated thoroughly...
  4. ncbi CloVR: a virtual machine for automated and portable sequence analysis from the desktop using cloud computing
    Samuel V Angiuoli
    Institute for Genome Sciences IGS, University of Maryland School of Medicine, Baltimore, Maryland, USA
    BMC Bioinformatics 12:356. 2011
    ..Cloud computing platforms provide on-demand access to computing infrastructure over the Internet and can be used in combination with custom built virtual machines to distribute pre-packaged with pre-configured software...
  5. ncbi A comparative genomic analysis of diverse clonal types of enterotoxigenic Escherichia coli reveals pathovar-specific conservation
    Jason W Sahl
    University of Maryland School of Medicine, Institute for Genome Sciences, Baltimore, MD, USA
    Infect Immun 79:950-60. 2011
    ..These studies increase our understanding of ETEC evolution, as well as provide insight into virulence factors and conserved proteins, which may be targets for vaccine development...
  6. ncbi Using Sybil for interactive comparative genomics of microbes on the web
    David R Riley
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    Bioinformatics 28:160-6. 2012
    ..In addition to scalability, comparative genomics tools must also provide user-friendly interfaces such that the research scientist can explore complex data with minimal technical expertise...
  7. ncbi Ergatis: a web interface and scalable software system for bioinformatics workflows
    Joshua Orvis
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    Bioinformatics 26:1488-92. 2010
    ..Software is also needed to simplify data management and make large-scale bioinformatics analysis accessible and reproducible to a wide class of target users...
  8. ncbi Comparative genomics of the neglected human malaria parasite Plasmodium vivax
    Jane M Carlton
    The Institute for Genomic Research J Craig Venter Institute, 9704 Medical Research Drive, Rockville, Maryland 20850, USA
    Nature 455:757-63. 2008
    ..Completion of the P. vivax genome provides the scientific community with a valuable resource that can be used to advance investigation into this neglected species...
  9. ncbi Sybil: methods and software for multiple genome comparison and visualization
    Jonathan Crabtree
    Institute for Genomic Research, Rockville, MD, USA
    Methods Mol Biol 408:93-108. 2007
    ....
  10. ncbi Comparative genomics of emerging human ehrlichiosis agents
    Julie C Dunning Hotopp
    The Institute for Genomic Research, Rockville, Maryland, USA
    PLoS Genet 2:e21. 2006
    ..These discoveries provide significant insights into the biology of these obligate intracellular pathogens...
  11. ncbi Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species
    Karen E Nelson
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 32:2386-95. 2004
    ..Whole genome comparative analyses revealed that the L.monocytogenes genomes are essentially syntenic, with the majority of genomic differences consisting of phage insertions, transposable elements and SNPs...