Samuel V Angiuoli

Summary

Affiliation: University of Maryland
Country: USA

Publications

  1. pmc Improving pan-genome annotation using whole genome multiple alignment
    Samuel V Angiuoli
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Bioinformatics 12:272. 2011
  2. pmc 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
  3. pmc 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. pmc 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
  5. pmc 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
  6. pmc 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
  7. pmc Mugsy: fast multiple alignment of closely related whole genomes
    Samuel V Angiuoli
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA
    Bioinformatics 27:334-42. 2011
  8. pmc 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
  9. pmc Comparative genomics of emerging human ehrlichiosis agents
    Julie C Dunning Hotopp
    The Institute for Genomic Research, Rockville, Maryland, USA
    PLoS Genet 2:e21. 2006

Detail Information

Publications9

  1. pmc Improving pan-genome annotation using whole genome multiple alignment
    Samuel V Angiuoli
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Bioinformatics 12:272. 2011
    ..Genome annotations can contain inconsistencies and errors that hinder comparative analysis even within a single species. Tools are needed to compare and improve annotation quality across sets of closely related genomes...
  2. pmc 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...
  3. pmc 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. pmc 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...
  5. pmc 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...
  6. pmc 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...
  7. pmc Mugsy: fast multiple alignment of closely related whole genomes
    Samuel V Angiuoli
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA
    Bioinformatics 27:334-42. 2011
    ..This increasing volume of data requires tools that can quickly compare multiple whole-genome sequences, millions of base pairs in length, to aid in the study of populations, pan-genomes, and genome evolution...
  8. pmc 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...
  9. pmc 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...