Now showing items 1-9 of 9

  • Automated simultaneous analysis phylogenetics (ASAP) : an enabling tool for phlyogenomics 

    Sarkar, Indra Neil; Egan, Mary G.; Coruzzi, Gloria; Lee, Ernest K.; DeSalle, Rob (BioMed Central, 2008-02-19)
    The availability of sequences from whole genomes to reconstruct the tree of life has the potential to enable the development of phylogenomic hypotheses in ways that have not been before possible. A significant bottleneck ...
  • Biodiversity informatics : organizing and linking information across the spectrum of life 

    Sarkar, Indra Neil (2007-04-08)
    Biological knowledge can be inferred from three major levels of information: molecules, organisms, and ecologies. Bioinformatics is an established field that has made significant advances in the development of systems and ...
  • CAOS software for use in character-based DNA barcoding 

    Sarkar, Indra Neil; Planet, Paul J.; DeSalle, Rob (2008-04)
    The success of character based DNA barcoding depends on the efficient identification of diagnostic character states from molecular sequences that have been organized hierarchically (e.g., according to phylogenetic methods). ...
  • Character-based DNA barcoding allows discrimination of genera, species and populations in Odonata 

    Rach, J.; DeSalle, Rob; Sarkar, Indra Neil; Schierwater, B.; Hadrys, H. (Royal Society, 2007-11-08)
    DNA barcoding has become a promising means for identifying organisms of all life stages. Currently, phenetic approaches and tree-building methods have been used to define species boundaries and discover 'cryptic species'. ...
  • Exploring historical trends using taxonomic name metadata 

    Sarkar, Indra Neil; Schenk, Ryan; Norton, Cathy N. (BioMed Central, 2008-05-13)
    Authority and year information have been attached to taxonomic names since Linnaean times. The systematic structure of taxonomic nomenclature facilitates the ability to develop tools that can be used to explore historical ...
  • GenBank and PubMed : how connected are they? 

    Miller, Holly; Norton, Cathy N.; Sarkar, Indra Neil (BioMed Central, 2009-06-09)
    GenBank(R) is a public repository of all publicly available molecular sequence data from a range of sources. In addition to relevant metadata (e.g., sequence description, source organism and taxonomy), publication information ...
  • Grand challenges in biodiversity informatics 

    Sarkar, Indra Neil (2007-01)
    The exponentially growing array of biological data has necessitated the development of a new information management domain, biodiversity informatics. It is one of the newest members of the ‘informatics’ sub-disciplines, ...
  • LigerCat : using “MeSH clouds” from journal, article, or gene citations to facilitate the identification of relevant biomedical literature 

    Sarkar, Indra Neil; Schenk, Ryan; Miller, Holly; Norton, Cathy N. (American Medical Informatics Association, 2009-11-14)
    The identification of relevant literature from within large collections is often a challenging endeavor. In the context of indexed resources, such as MEDLINE, it has been shown that keywords from a controlled vocabulary ...
  • uBioRSS : tracking taxonomic literature using RSS 

    Leary, Patrick R.; Remsen, David P.; Norton, Cathy N.; Patterson, David J.; Sarkar, Indra Neil (Oxford University Press, 2007-03-28)
    Web content syndication through standard formats such as RSS and ATOM has become an increasingly popular mechanism for publishers, news sources, and blogs to disseminate regularly updated content. These standardized ...