Yan Wei Lim

Summary

Affiliation: San Diego State University
Country: USA

Publications

  1. pmc Mechanistic model of Rothia mucilaginosa adaptation toward persistence in the CF lung, based on a genome reconstructed from metagenomic data
    Yan Wei Lim
    Department of Biology, San Diego State University, San Diego, California, USA
    PLoS ONE 8:e64285. 2013
  2. pmc TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets
    Robert Schmieder
    Department of Computer Science, San Diego State University, CA, USA
    BMC Bioinformatics 11:341. 2010
  3. pmc Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis
    Yan Wei Lim
    Department of Biology, San Diego State University, San Diego, California, USA
    J Clin Microbiol 52:425-37. 2014
  4. doi request reprint Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis
    Yan Wei Lim
    Department of Biology, San Diego State University, San Diego, California, USA
    J Clin Microbiol 52:425-37. 2014
  5. pmc Breath gas metabolites and bacterial metagenomes from cystic fibrosis airways indicate active pH neutral 2,3-butanedione fermentation
    Katrine L Whiteson
    Department of Biology, San Diego State University, San Diego, CA, USA
    ISME J 8:1247-58. 2014
  6. pmc Spatial distribution of microbial communities in the cystic fibrosis lung
    Dana Willner
    Department of Biology, San Diego State University, San Diego, CA, USA
    ISME J 6:471-4. 2012
  7. pmc Identification and removal of ribosomal RNA sequences from metatranscriptomes
    Robert Schmieder
    Department of Computer Science, San Diego State University, San Diego, CA 92182, USA
    Bioinformatics 28:433-5. 2012
  8. pmc Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness
    John L Mokili
    Department of Biology, San Diego State University, San Diego, California, USA
    PLoS ONE 8:e58404. 2013

Collaborators

Detail Information

Publications8

  1. pmc Mechanistic model of Rothia mucilaginosa adaptation toward persistence in the CF lung, based on a genome reconstructed from metagenomic data
    Yan Wei Lim
    Department of Biology, San Diego State University, San Diego, California, USA
    PLoS ONE 8:e64285. 2013
    ..The results also highlight the remarkable evolutionary and ecological similarities of many CF pathogens; further examination of these similarities has the potential to guide patient care and treatment...
  2. pmc TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets
    Robert Schmieder
    Department of Computer Science, San Diego State University, CA, USA
    BMC Bioinformatics 11:341. 2010
    ..Because of the potential for downstream inaccuracies introduced by unwanted sequence contaminations, it is important to use reliable tools for pre-processing sequence data...
  3. pmc Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis
    Yan Wei Lim
    Department of Biology, San Diego State University, San Diego, California, USA
    J Clin Microbiol 52:425-37. 2014
    ..Thus, this pilot study provides an example of how metagenomic data might be used with clinical assessments for the development of treatments tailored to individual patients. ..
  4. doi request reprint Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis
    Yan Wei Lim
    Department of Biology, San Diego State University, San Diego, California, USA
    J Clin Microbiol 52:425-37. 2014
    ..Thus, this pilot study provides an example of how metagenomic data might be used with clinical assessments for the development of treatments tailored to individual patients. ..
  5. pmc Breath gas metabolites and bacterial metagenomes from cystic fibrosis airways indicate active pH neutral 2,3-butanedione fermentation
    Katrine L Whiteson
    Department of Biology, San Diego State University, San Diego, CA, USA
    ISME J 8:1247-58. 2014
    ..We hypothesize that this may also increase phenazine production by P. aeruginosa, increasing reactive oxygen species and providing additional electron acceptors to CF microbes. ..
  6. pmc Spatial distribution of microbial communities in the cystic fibrosis lung
    Dana Willner
    Department of Biology, San Diego State University, San Diego, CA, USA
    ISME J 6:471-4. 2012
    ....
  7. pmc Identification and removal of ribosomal RNA sequences from metatranscriptomes
    Robert Schmieder
    Department of Computer Science, San Diego State University, San Diego, CA 92182, USA
    Bioinformatics 28:433-5. 2012
    ..riboPicker categorizes rRNA-like sequences and provides graphical visualizations and tabular outputs of ribosomal coverage, alignment results and taxonomic classifications...
  8. pmc Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness
    John L Mokili
    Department of Biology, San Diego State University, San Diego, California, USA
    PLoS ONE 8:e58404. 2013
    ..The metagenomic procedures, coupled with the bioinformatic methods described herein are well suited to detect small circular genomes such as those of human papillomaviruses...