Andreas Prlic

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc Pre-calculated protein structure alignments at the RCSB PDB website
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    Bioinformatics 26:2983-5. 2010
  2. pmc The RCSB Protein Data Bank: new resources for research and education
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 41:D475-82. 2013
  3. pmc Quality assurance for the query and distribution systems of the RCSB Protein Data Bank
    Wolfgang F Bluhm
    University of California San Diego, La Jolla, CA 92093 0743, USA
    Database (Oxford) 2011:bar003. 2011
  4. pmc The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
    Peter W Rose
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Nucleic Acids Res 43:D345-56. 2015
  5. pmc Systematic detection of internal symmetry in proteins using CE-Symm
    Douglas Myers-Turnbull
    Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA
    J Mol Biol 426:2255-68. 2014
  6. pmc The RCSB Protein Data Bank: redesigned web site and web services
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 39:D392-401. 2011
  7. pmc RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank
    Gregory B Quinn
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA, Graduate School of Medicine, Kyoto University, Yoshidakonoecho, Sakyo Ward, Kyoto, Kyoto Prefecture 606 8501, Japan, RCSB Protein Data Bank, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, Piscataway, NJ 08854 8087 and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA 92093 0743
    Bioinformatics 31:126-7. 2015
  8. pmc BioJava: an open-source framework for bioinformatics in 2012
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Bioinformatics 28:2693-5. 2012
  9. pmc Integration of open access literature into the RCSB Protein Data Bank using BioLit
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    BMC Bioinformatics 11:220. 2010
  10. pmc Detection of circular permutations within protein structures using CE-CP
    Spencer E Bliven
    Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, CA 92093, USA, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA and RCSB Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 92093, USA Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, CA 92093, USA, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA and RCSB Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 92093, USA
    Bioinformatics 31:1316-8. 2015

Collaborators

Detail Information

Publications10

  1. pmc Pre-calculated protein structure alignments at the RCSB PDB website
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    Bioinformatics 26:2983-5. 2010
    ..These three applications allow users to discover novel relationships between proteins available either at the RCSB PDB or provided by the user...
  2. pmc The RCSB Protein Data Bank: new resources for research and education
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 41:D475-82. 2013
    ..These improvements enable new opportunities for analyzing and understanding structure data...
  3. pmc Quality assurance for the query and distribution systems of the RCSB Protein Data Bank
    Wolfgang F Bluhm
    University of California San Diego, La Jolla, CA 92093 0743, USA
    Database (Oxford) 2011:bar003. 2011
    ..As such it provides suggestions for how other websites might be operated...
  4. pmc The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
    Peter W Rose
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Nucleic Acids Res 43:D345-56. 2015
    ..Our efforts are aimed at expanding the role of 3D structure in understanding biology and medicine. ..
  5. pmc Systematic detection of internal symmetry in proteins using CE-Symm
    Douglas Myers-Turnbull
    Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA
    J Mol Biol 426:2255-68. 2014
    ..1) at https://github.com/rcsb/symmetry. An interactive census of domains identified as symmetric by CE-Symm is available from http://source.rcsb.org/jfatcatserver/scopResults.jsp]. ..
  6. pmc The RCSB Protein Data Bank: redesigned web site and web services
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 39:D392-401. 2011
    ..These improvements enable a range of new possibilities to analyze and understand structure data. The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education...
  7. pmc RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank
    Gregory B Quinn
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA, Graduate School of Medicine, Kyoto University, Yoshidakonoecho, Sakyo Ward, Kyoto, Kyoto Prefecture 606 8501, Japan, RCSB Protein Data Bank, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, Piscataway, NJ 08854 8087 and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA 92093 0743
    Bioinformatics 31:126-7. 2015
    ..Using the app, users from the general public to expert researchers can quickly search and visualize biomolecules, and add personal annotations via the RCSB PDB's integrated MyPDB service...
  8. pmc BioJava: an open-source framework for bioinformatics in 2012
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Bioinformatics 28:2693-5. 2012
    ..BioJava is an open-source project for processing of biological data in the Java programming language. We have recently released a new version (3.0.5), which is a major update to the code base that greatly extends its functionality...
  9. pmc Integration of open access literature into the RCSB Protein Data Bank using BioLit
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    BMC Bioinformatics 11:220. 2010
    ..To exploit this opportunity we present the integration of open access literature with the RCSB Protein Data Bank (PDB)...
  10. pmc Detection of circular permutations within protein structures using CE-CP
    Spencer E Bliven
    Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, CA 92093, USA, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA and RCSB Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 92093, USA Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, CA 92093, USA, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA and RCSB Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 92093, USA
    Bioinformatics 31:1316-8. 2015
    ..Artificial circular permutations have also been used for protein studies. However, such relationships are difficult to detect for many sequence and structure comparison algorithms and require special consideration...