Chongle Pan

Summary

Affiliation: Oak Ridge National Laboratory
Country: USA

Publications

  1. ncbi Measuring dissociation rate constants of protein complexes through subunit exchange: experimental design and theoretical modeling
    Chongle Pan
    Oak Ridge National Laboratory, Computer Science and Mathematics Division and BioSciences Division, Oak Ridge, Tennessee, United States of America
    PLoS ONE 6:e28827. 2011
  2. ncbi Quantitative tracking of isotope flows in proteomes of microbial communities
    Chongle Pan
    Computer Science and Mathematics Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831 6164, USA
    Mol Cell Proteomics 10:M110.006049. 2011
  3. ncbi A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry
    Chongle Pan
    Computer Science and Mathematics Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
    BMC Bioinformatics 11:118. 2010
  4. ncbi ProRata: A quantitative proteomics program for accurate protein abundance ratio estimation with confidence interval evaluation
    Chongle Pan
    Chemical Sciences Division, Computational Biology Institute, Genome Science and Technology Graduate School, Oak Ridge National Laboratory-University of Tennessee, Oak Ridge, Tennessee 37830, USA
    Anal Chem 78:7121-31. 2006
  5. ncbi Phenotype fingerprinting suggests the involvement of single-genotype consortia in degradation of aromatic compounds by Rhodopseudomonas palustris
    Tatiana V Karpinets
    Computational Biology Institute, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA
    PLoS ONE 4:e4615. 2009
  6. ncbi Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics
    Chongle Pan
    Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
    Mol Cell Proteomics 7:938-48. 2008
  7. ncbi Impact of pretreated Switchgrass and biomass carbohydrates on Clostridium thermocellum ATCC 27405 cellulosome composition: a quantitative proteomic analysis
    Babu Raman
    Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
    PLoS ONE 4:e5271. 2009
  8. ncbi Robust estimation of peptide abundance ratios and rigorous scoring of their variability and bias in quantitative shotgun proteomics
    Chongle Pan
    Computational Biology Institute, Chemical Sciences Division, Oak Ridge National Laboratory-University of Tennessee, Oak Ridge, Tennessee 37830, USA
    Anal Chem 78:7110-20. 2006
  9. ncbi Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community
    Ryan S Mueller
    University of California, Berkeley, California 94720, USA
    Environ Microbiol 13:2279-92. 2011
  10. ncbi Efficient and specific trypsin digestion of microgram to nanogram quantities of proteins in organic-aqueous solvent systems
    Michael Brad Strader
    Organic and Biological Mass Spectrometry Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
    Anal Chem 78:125-34. 2006

Collaborators

Detail Information

Publications10

  1. ncbi Measuring dissociation rate constants of protein complexes through subunit exchange: experimental design and theoretical modeling
    Chongle Pan
    Oak Ridge National Laboratory, Computer Science and Mathematics Division and BioSciences Division, Oak Ridge, Tennessee, United States of America
    PLoS ONE 6:e28827. 2011
    ..The results showed that k(off) determines, and hence can be estimated from, the observed rate of subunit exchange. This study provided the theoretical foundation for future experiments that can validate and apply the MASE method...
  2. ncbi Quantitative tracking of isotope flows in proteomes of microbial communities
    Chongle Pan
    Computer Science and Mathematics Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831 6164, USA
    Mol Cell Proteomics 10:M110.006049. 2011
    ..The proteomic SIP method can be extended to many systems to track fluxes of (13)C or (15)N in microbial communities...
  3. ncbi A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry
    Chongle Pan
    Computer Science and Mathematics Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
    BMC Bioinformatics 11:118. 2010
    ..The improved spectral quality enables more accurate de novo sequencing for identification of post-translational modifications and amino acid polymorphisms...
  4. ncbi ProRata: A quantitative proteomics program for accurate protein abundance ratio estimation with confidence interval evaluation
    Chongle Pan
    Chemical Sciences Division, Computational Biology Institute, Genome Science and Technology Graduate School, Oak Ridge National Laboratory-University of Tennessee, Oak Ridge, Tennessee 37830, USA
    Anal Chem 78:7121-31. 2006
    ..The profile likelihood algorithm was integrated into a quantitative proteomics program, called ProRata, freely available at www.MSProRata.org...
  5. ncbi Phenotype fingerprinting suggests the involvement of single-genotype consortia in degradation of aromatic compounds by Rhodopseudomonas palustris
    Tatiana V Karpinets
    Computational Biology Institute, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA
    PLoS ONE 4:e4615. 2009
    ..This subpopulation in the consortium was confirmed in an independent experiment by consumption of dissolved nitrogen gas under the benzoate degrading conditions...
  6. ncbi Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics
    Chongle Pan
    Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
    Mol Cell Proteomics 7:938-48. 2008
    ..The integrated gene expression data provided strong support for the non-beta-oxidation route in R. palustris. A putative gene was proposed for every step in the non-beta-oxidation route...
  7. ncbi Impact of pretreated Switchgrass and biomass carbohydrates on Clostridium thermocellum ATCC 27405 cellulosome composition: a quantitative proteomic analysis
    Babu Raman
    Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
    PLoS ONE 4:e5271. 2009
    ..C. thermocellum achieves efficient cellulose hydrolysis using multiprotein extracellular enzymatic complexes, termed cellulosomes...
  8. ncbi Robust estimation of peptide abundance ratios and rigorous scoring of their variability and bias in quantitative shotgun proteomics
    Chongle Pan
    Computational Biology Institute, Chemical Sciences Division, Oak Ridge National Laboratory-University of Tennessee, Oak Ridge, Tennessee 37830, USA
    Anal Chem 78:7110-20. 2006
    ..We demonstrate that the profile signal-to-noise ratio is inversely correlated with the variability and bias of peptide abundance ratio estimation...
  9. ncbi Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community
    Ryan S Mueller
    University of California, Berkeley, California 94720, USA
    Environ Microbiol 13:2279-92. 2011
    ..These findings provide unprecedented insight into the physiological changes that may result from competitive interactions within communities in natural environments...
  10. ncbi Efficient and specific trypsin digestion of microgram to nanogram quantities of proteins in organic-aqueous solvent systems
    Michael Brad Strader
    Organic and Biological Mass Spectrometry Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA
    Anal Chem 78:125-34. 2006
    ..The technique was also demonstrated for an affinity-isolated protein complex, GroEL. To our knowledge, this report is the first using mass spectrometry data to show a linkage between digestion solvent and trypsin specificity...