Experts and Doctors on computational biology in Novato, California, United States

Summary

Locale: Novato, California, United States
Topic: computational biology

Top Publications

  1. del Rio G, Castro Obregon S, Rao R, Ellerby H, Bredesen D. APAP, a sequence-pattern recognition approach identifies substance P as a potential apoptotic peptide. FEBS Lett. 2001;494:213-9 pubmed
    ..Among other peptides, substance P was identified as a PAP and subsequently demonstrated to be a pro-apoptotic peptide experimentally. APAP thus provides a method to detect and ultimately improve pro-apoptotic peptides for chemotherapy. ..
  2. Golden T, Hubbard A, Morten K, Hinerfeld D, Melov S. Pharmacogenomic profiling of an oxidative stress-mediated spongiform encephalopathy. Free Radic Biol Med. 2005;39:152-63 pubmed
    ..The normalization of expression of some of these pathways by antioxidant treatment suggests approaches to treating disease in which endogenous oxidative stress plays a role. ..
  3. Thibert B, Bredesen D, Del Rio G. Improved prediction of critical residues for protein function based on network and phylogenetic analyses. BMC Bioinformatics. 2005;6:213 pubmed
    ..e., non-surface), although some surface residues are indeed identified as critical by network analyses; whereas residues chosen by phylogenetic approaches display a lower overall probability of being surface inaccessible. ..
  4. Rardin M, Newman J, Held J, Cusack M, Sorensen D, Li B, et al. Label-free quantitative proteomics of the lysine acetylome in mitochondria identifies substrates of SIRT3 in metabolic pathways. Proc Natl Acad Sci U S A. 2013;110:6601-6 pubmed publisher
  5. Peters T, Miller A, Tourette C, Agren H, Hubbard A, Hughes R. Genomic Analysis of ATP Efflux in Saccharomyces cerevisiae. G3 (Bethesda). 2015;6:161-70 pubmed publisher
    ..These results will facilitate analysis of ATP efflux mechanisms in higher eukaryotes. ..
  6. Zhao Y, Mooney S. Functional organization and its implication in evolution of the human protein-protein interaction network. BMC Genomics. 2012;13:150 pubmed publisher
    ..We have demonstrated functional organization of a protein interaction network. Given our observations, we suggest that its significance should not be overlooked when studying network evolution. ..

Detail Information

Publications6

  1. del Rio G, Castro Obregon S, Rao R, Ellerby H, Bredesen D. APAP, a sequence-pattern recognition approach identifies substance P as a potential apoptotic peptide. FEBS Lett. 2001;494:213-9 pubmed
    ..Among other peptides, substance P was identified as a PAP and subsequently demonstrated to be a pro-apoptotic peptide experimentally. APAP thus provides a method to detect and ultimately improve pro-apoptotic peptides for chemotherapy. ..
  2. Golden T, Hubbard A, Morten K, Hinerfeld D, Melov S. Pharmacogenomic profiling of an oxidative stress-mediated spongiform encephalopathy. Free Radic Biol Med. 2005;39:152-63 pubmed
    ..The normalization of expression of some of these pathways by antioxidant treatment suggests approaches to treating disease in which endogenous oxidative stress plays a role. ..
  3. Thibert B, Bredesen D, Del Rio G. Improved prediction of critical residues for protein function based on network and phylogenetic analyses. BMC Bioinformatics. 2005;6:213 pubmed
    ..e., non-surface), although some surface residues are indeed identified as critical by network analyses; whereas residues chosen by phylogenetic approaches display a lower overall probability of being surface inaccessible. ..
  4. Rardin M, Newman J, Held J, Cusack M, Sorensen D, Li B, et al. Label-free quantitative proteomics of the lysine acetylome in mitochondria identifies substrates of SIRT3 in metabolic pathways. Proc Natl Acad Sci U S A. 2013;110:6601-6 pubmed publisher
  5. Peters T, Miller A, Tourette C, Agren H, Hubbard A, Hughes R. Genomic Analysis of ATP Efflux in Saccharomyces cerevisiae. G3 (Bethesda). 2015;6:161-70 pubmed publisher
    ..These results will facilitate analysis of ATP efflux mechanisms in higher eukaryotes. ..
  6. Zhao Y, Mooney S. Functional organization and its implication in evolution of the human protein-protein interaction network. BMC Genomics. 2012;13:150 pubmed publisher
    ..We have demonstrated functional organization of a protein interaction network. Given our observations, we suggest that its significance should not be overlooked when studying network evolution. ..