Christian M Zmasek

Summary

Affiliation: The Burnham Institute
Country: USA

Publications

  1. pmc The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*
    Toshiaki Katayama
    Database Center for Life Science, Research Organization of Information and Systems, 2 11 16 Yayoi, Bunkyo ku, Tokyo, 113 0032, Japan
    J Biomed Semantics 1:8. 2010
  2. pmc phyloXML: XML for evolutionary biology and comparative genomics
    Mira V Han
    School of Informatics, Indiana University, Bloomington, IN 47408, USA
    BMC Bioinformatics 10:356. 2009
  3. pmc Surprising complexity of the ancestral apoptosis network
    Christian M Zmasek
    Burnham Institute for Medical Research, North Torrey Pines Road, La Jolla, CA 92037, USA
    Genome Biol 8:R226. 2007
  4. pmc Novel genes dramatically alter regulatory network topology in amphioxus
    Qing Zhang
    Burnham Institute for Medical Research, North Torrey Pines Road, La Jolla, CA 92037, USA
    Genome Biol 9:R123. 2008
  5. pmc Domain architecture evolution of pattern-recognition receptors
    Qing Zhang
    Burnham Institute for Medical Research, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Immunogenetics 62:263-72. 2010
  6. pmc Evolution of the animal apoptosis network
    Christian M Zmasek
    Program on Bioinformatics and Systems Biology, Sanford Burnham Medical Research Institute, La Jolla, California 92037, USA
    Cold Spring Harb Perspect Biol 5:a008649. 2013
  7. pmc This Déjà vu feeling--analysis of multidomain protein evolution in eukaryotic genomes
    Christian M Zmasek
    Program in Bioinformatics and Systems Biology, Sanford Burnham Medical Research Institute, La Jolla, CA, USA
    PLoS Comput Biol 8:e1002701. 2012
  8. pmc TIR domain-containing adaptor SARM is a late addition to the ongoing microbe-host dialog
    Qing Zhang
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Dev Comp Immunol 35:461-8. 2011
  9. pmc Strong functional patterns in the evolution of eukaryotic genomes revealed by the reconstruction of ancestral protein domain repertoires
    Christian M Zmasek
    Program in Bioinformatics and Systems Biology, Sanford Burnham Medical Research Institute, La Jolla, CA 92037, USA
    Genome Biol 12:R4. 2011
  10. pmc The amphioxus genome illuminates vertebrate origins and cephalochordate biology
    Linda Z Holland
    Marine Biology Research Division, Scripps Institution of Oceanography, La Jolla, California 92093 0202, USA
    Genome Res 18:1100-11. 2008

Collaborators

Detail Information

Publications14

  1. pmc The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*
    Toshiaki Katayama
    Database Center for Life Science, Research Organization of Information and Systems, 2 11 16 Yayoi, Bunkyo ku, Tokyo, 113 0032, Japan
    J Biomed Semantics 1:8. 2010
    ....
  2. pmc phyloXML: XML for evolutionary biology and comparative genomics
    Mira V Han
    School of Informatics, Indiana University, Bloomington, IN 47408, USA
    BMC Bioinformatics 10:356. 2009
    ..The data standards currently used for evolutionary trees have limited capacities to incorporate such annotations of different data types...
  3. pmc Surprising complexity of the ancestral apoptosis network
    Christian M Zmasek
    Burnham Institute for Medical Research, North Torrey Pines Road, La Jolla, CA 92037, USA
    Genome Biol 8:R226. 2007
    ....
  4. pmc Novel genes dramatically alter regulatory network topology in amphioxus
    Qing Zhang
    Burnham Institute for Medical Research, North Torrey Pines Road, La Jolla, CA 92037, USA
    Genome Biol 9:R123. 2008
    ....
  5. pmc Domain architecture evolution of pattern-recognition receptors
    Qing Zhang
    Burnham Institute for Medical Research, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Immunogenetics 62:263-72. 2010
    ....
  6. pmc Evolution of the animal apoptosis network
    Christian M Zmasek
    Program on Bioinformatics and Systems Biology, Sanford Burnham Medical Research Institute, La Jolla, California 92037, USA
    Cold Spring Harb Perspect Biol 5:a008649. 2013
    ....
  7. pmc This Déjà vu feeling--analysis of multidomain protein evolution in eukaryotic genomes
    Christian M Zmasek
    Program in Bioinformatics and Systems Biology, Sanford Burnham Medical Research Institute, La Jolla, CA, USA
    PLoS Comput Biol 8:e1002701. 2012
    ....
  8. pmc TIR domain-containing adaptor SARM is a late addition to the ongoing microbe-host dialog
    Qing Zhang
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Dev Comp Immunol 35:461-8. 2011
    ....
  9. pmc Strong functional patterns in the evolution of eukaryotic genomes revealed by the reconstruction of ancestral protein domain repertoires
    Christian M Zmasek
    Program in Bioinformatics and Systems Biology, Sanford Burnham Medical Research Institute, La Jolla, CA 92037, USA
    Genome Biol 12:R4. 2011
    ..Underlying trends in the evolution of the functional content and capabilities of different eukaryotic genomes might be hidden by simultaneous gains and losses of genes...
  10. pmc The amphioxus genome illuminates vertebrate origins and cephalochordate biology
    Linda Z Holland
    Marine Biology Research Division, Scripps Institution of Oceanography, La Jolla, California 92093 0202, USA
    Genome Res 18:1100-11. 2008
    ..Our results indicate that the amphioxus genome is elemental to an understanding of the biology and evolution of nonchordate deuterostomes, invertebrate chordates, and vertebrates...
  11. pmc TOPSAN: a dynamic web database for structural genomics
    Kyle Ellrott
    Joint Center for Structural Genomics, Bioinformatics Core, Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Nucleic Acids Res 39:D494-6. 2011
    ..TOPSAN can be found at http://www.topsan.org...
  12. ncbi request reprint Evolution of the human ion channel set
    Timothy J Jegla
    The Scripps Research Institute, La Jolla, CA 92037, USA
    Comb Chem High Throughput Screen 12:2-23. 2009
    ..Furthermore, genome-wide patterns of sequence conservation can now be used to refine strategies for the identification of gene-specific channel probes...
  13. pmc RIO: analyzing proteomes by automated phylogenomics using resampled inference of orthologs
    Christian M Zmasek
    Howard Hughes Medical Institute and Department of Genetics, Washington University School of Medicine, St Louis, MO 63110, USA
    BMC Bioinformatics 3:14. 2002
    ..The utility of phylogenetic information in high-throughput genome annotation ("phylogenomics") is widely recognized, but existing approaches are either manual or not explicitly based on phylogenetic trees...
  14. ncbi request reprint LumberJack: a heuristic tool for sequence alignment exploration and phylogenetic inference
    Carolyn J Lawrence
    Department of Plant Biology, The University of Georgia, Athens 30602, USA
    Bioinformatics 20:1977-9. 2004
    ..To determine whether any of the topologies generated is significantly more likely than the others, Kishino-Hasegawa, Shimodaira-Hasegawa and ELW tests are implemented. Availability and..