Jeremy D Selengut

Summary

Affiliation: J. Craig Venter Institute
Country: USA

Publications

  1. pmc Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function
    Jeremy D Selengut
    J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Bioinformatics 11:52. 2010
  2. pmc TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes
    Jeremy D Selengut
    TIGR, Bioinformatics Department, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 35:D260-4. 2007
  3. pmc TIGRFAMs and Genome Properties in 2013
    Daniel H Haft
    Informatics, J Craig Venter Institute, Rockville, MD 20850, USA
    Nucleic Acids Res 41:D387-95. 2013
  4. pmc ProPhylo: partial phylogenetic profiling to guide protein family construction and assignment of biological process
    Malay K Basu
    J Craig Venter Institute, Rockville, MD 20850, USA
    BMC Bioinformatics 12:434. 2011
  5. pmc Unexpected abundance of coenzyme F(420)-dependent enzymes in Mycobacterium tuberculosis and other actinobacteria
    Jeremy D Selengut
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    J Bacteriol 192:5788-98. 2010
  6. pmc Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils
    Naomi L Ward
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Appl Environ Microbiol 75:2046-56. 2009
  7. pmc Archaeosortases and exosortases are widely distributed systems linking membrane transit with posttranslational modification
    Daniel H Haft
    J Craig Venter Institute, Rockville, Maryland, USA
    J Bacteriol 194:36-48. 2012
  8. ncbi Genome sequence and identification of candidate vaccine antigens from the animal pathogen Dichelobacter nodosus
    Garry S A Myers
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Nat Biotechnol 25:569-75. 2007
  9. ncbi Genome Properties: a system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics
    Daniel H Haft
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Bioinformatics 21:293-306. 2005
  10. pmc The TIGRFAMs database of protein families
    Daniel H Haft
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 31:371-3. 2003

Detail Information

Publications11

  1. pmc Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function
    Jeremy D Selengut
    J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Bioinformatics 11:52. 2010
    ..The approach is based on the basic scoring mechanism employed by PPP, namely the use of binomial distribution statistics to optimize sequence similarity cutoffs during searches of partitioned training sets...
  2. pmc TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes
    Jeremy D Selengut
    TIGR, Bioinformatics Department, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 35:D260-4. 2007
    ..The TIGRFAMs and Genome Properties systems can be accessed at http://www.tigr.org/TIGRFAMs and http://www.tigr.org/Genome_Properties...
  3. pmc TIGRFAMs and Genome Properties in 2013
    Daniel H Haft
    Informatics, J Craig Venter Institute, Rockville, MD 20850, USA
    Nucleic Acids Res 41:D387-95. 2013
    ..At present, 4284 models appear in TIGRFAMs, while 628 systems are described by Genome Properties. Content derives both from subsystem discovery work and from biocuration of the scientific literature...
  4. pmc ProPhylo: partial phylogenetic profiling to guide protein family construction and assignment of biological process
    Malay K Basu
    J Craig Venter Institute, Rockville, MD 20850, USA
    BMC Bioinformatics 12:434. 2011
    ..To be its most effective, a phylogenetic profiling algorithm must be able to examine co-occurrences among protein families whose boundaries are uncertain within large homologous protein superfamilies...
  5. pmc Unexpected abundance of coenzyme F(420)-dependent enzymes in Mycobacterium tuberculosis and other actinobacteria
    Jeremy D Selengut
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    J Bacteriol 192:5788-98. 2010
    ..These findings suggest that M. tuberculosis relies heavily on coenzyme F(420) for its redox reactions. This dependence and the cofactor's rarity may make F(420)-related proteins promising drug targets...
  6. pmc Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils
    Naomi L Ward
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Appl Environ Microbiol 75:2046-56. 2009
    ....
  7. pmc Archaeosortases and exosortases are widely distributed systems linking membrane transit with posttranslational modification
    Daniel H Haft
    J Craig Venter Institute, Rockville, Maryland, USA
    J Bacteriol 194:36-48. 2012
    ..Their target proteins are destined to transit cellular membranes during their biosynthesis, during which most undergo additional posttranslational modifications such as glycosylation...
  8. ncbi Genome sequence and identification of candidate vaccine antigens from the animal pathogen Dichelobacter nodosus
    Garry S A Myers
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Nat Biotechnol 25:569-75. 2007
    ..Screening of these proteins against ovine antisera identified eight immunogenic proteins that are candidate antigens for a cross-protective vaccine...
  9. ncbi Genome Properties: a system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics
    Daniel H Haft
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Bioinformatics 21:293-306. 2005
    ..Compiling such information across microbial genomes improves the functional classification of proteins and provides a valuable resource for comparative genomics...
  10. pmc The TIGRFAMs database of protein families
    Daniel H Haft
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 31:371-3. 2003
    ..The database currently contains over 1600 protein families. TIGRFAMs is available for searching or downloading at www.tigr.org/TIGRFAMs...
  11. 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...