David J Wild

Summary

Affiliation: Indiana University
Country: USA

Publications

  1. ncbi Improving integrative searching of systems chemical biology data using semantic annotation
    Bin Chen
    School of Informatics and Computing, Indiana University, Bloomington, IN, USA
    J Cheminform 4:6. 2012
  2. ncbi Chem2Bio2RDF: a semantic framework for linking and data mining chemogenomic and systems chemical biology data
    Bin Chen
    School of Informatics and Computing, Indiana University, Bloomington, IN, USA
    BMC Bioinformatics 11:255. 2010
  3. ncbi Userscripts for the life sciences
    Egon L Willighagen
    Cologne University Bioinformatics Center, Cologne University, Cologne, Germany
    BMC Bioinformatics 8:487. 2007
  4. ncbi Challenges for chemoinformatics education in drug discovery
    David J Wild
    School of Informatics, Indiana University, 901 E 10th Street, Bloomington, IN 47408, USA
    Drug Discov Today 11:436-9. 2006
  5. ncbi WENDI: A tool for finding non-obvious relationships between compounds and biological properties, genes, diseases and scholarly publications
    Qian Zhu
    School of Informatics and Computing, Indiana University, Bloomington, IN, USA
    J Cheminform 2:6. 2010
  6. ncbi Semantic inference using chemogenomics data for drug discovery
    Qian Zhu
    School of Informatics and Computing, Indiana University, Bloomington, USA
    BMC Bioinformatics 12:256. 2011
  7. ncbi Mining relational paths in integrated biomedical data
    Bing He
    School of Library and Information Science, Indiana University, Bloomington, Indiana, United States of America
    PLoS ONE 6:e27506. 2011
  8. ncbi Finding complex biological relationships in recent PubMed articles using Bio-LDA
    Huijun Wang
    School of Informatics and Computing, Indiana University, Bloomington, Indiana, United States of America
    PLoS ONE 6:e17243. 2011
  9. ncbi Chemical data mining of the NCI human tumor cell line database
    Huijun Wang
    Indiana University School of Informatics and Chemical Informatics, and Cyberinfrastructure Collaboratory, 901 East Tenth Street, Bloomington, IN 47408, USA
    J Chem Inf Model 47:2063-76. 2007
  10. ncbi Comparing bioassay response and similarity ensemble approaches to probing protein pharmacology
    Bin Chen
    School of Informatics and Computing, Indiana University at Bloomington, Indiana, USA
    Bioinformatics 27:3044-9. 2011

Collaborators

Detail Information

Publications17

  1. ncbi Improving integrative searching of systems chemical biology data using semantic annotation
    Bin Chen
    School of Informatics and Computing, Indiana University, Bloomington, IN, USA
    J Cheminform 4:6. 2012
    ..abstract:..
  2. ncbi Chem2Bio2RDF: a semantic framework for linking and data mining chemogenomic and systems chemical biology data
    Bin Chen
    School of Informatics and Computing, Indiana University, Bloomington, IN, USA
    BMC Bioinformatics 11:255. 2010
    ..Thus far, the inclusion of chemogenomic and systems chemical biology information that crosses the domains of chemistry and biology has been very limited..
  3. ncbi Userscripts for the life sciences
    Egon L Willighagen
    Cologne University Bioinformatics Center, Cologne University, Cologne, Germany
    BMC Bioinformatics 8:487. 2007
    ..This opens possibilities to aggregate information and computational results from different web resources into the web page of one of those resources...
  4. ncbi Challenges for chemoinformatics education in drug discovery
    David J Wild
    School of Informatics, Indiana University, 901 E 10th Street, Bloomington, IN 47408, USA
    Drug Discov Today 11:436-9. 2006
    ..This article reviews the academic and commercial educational programs that are available in chemoinformatics, considers the current challenges and takes a look at emerging trends, such as distance education and intensive short courses...
  5. ncbi WENDI: A tool for finding non-obvious relationships between compounds and biological properties, genes, diseases and scholarly publications
    Qian Zhu
    School of Informatics and Computing, Indiana University, Bloomington, IN, USA
    J Cheminform 2:6. 2010
    ....
  6. ncbi Semantic inference using chemogenomics data for drug discovery
    Qian Zhu
    School of Informatics and Computing, Indiana University, Bloomington, USA
    BMC Bioinformatics 12:256. 2011
    ..In this paper we examine the utility of automatically inferring new compound-disease associations (and thus new links in the network) based on semantically marked-up versions of these evidence paths, rule-sets and inference engines...
  7. ncbi Mining relational paths in integrated biomedical data
    Bing He
    School of Library and Information Science, Indiana University, Bloomington, Indiana, United States of America
    PLoS ONE 6:e27506. 2011
    ....
  8. ncbi Finding complex biological relationships in recent PubMed articles using Bio-LDA
    Huijun Wang
    School of Informatics and Computing, Indiana University, Bloomington, Indiana, United States of America
    PLoS ONE 6:e17243. 2011
    ..This combined approach offers new opportunities for knowledge discovery in many areas of biology including target identification, lead hopping and drug repurposing...
  9. ncbi Chemical data mining of the NCI human tumor cell line database
    Huijun Wang
    Indiana University School of Informatics and Chemical Informatics, and Cyberinfrastructure Collaboratory, 901 East Tenth Street, Bloomington, IN 47408, USA
    J Chem Inf Model 47:2063-76. 2007
    ..In this paper we describe a formal knowledge discovery approach to characterizing and data mining this set and report the results of some of our initial experiments in mining the set from a chemoinformatics perspective...
  10. ncbi Comparing bioassay response and similarity ensemble approaches to probing protein pharmacology
    Bin Chen
    School of Informatics and Computing, Indiana University at Bloomington, Indiana, USA
    Bioinformatics 27:3044-9. 2011
    ..Recent publications indicate that similarity methods can be highly accurate, but it has been unclear how similarity methods compare to methods that use bioassay response data directly...
  11. ncbi Videoconferencing and other distance education techniques in chemoinformatics teaching and research at Indiana University
    David J Wild
    Indiana University School of Informatics, 901 East Tenth Street, Bloomington, Indiana 47408, USA
    J Chem Inf Model 46:495-502. 2006
    ....
  12. ncbi Systems chemical biology and the Semantic Web: what they mean for the future of drug discovery research
    David J Wild
    Indiana University School of Informatics and Computing, Bloomington, IN, USA
    Drug Discov Today 17:469-74. 2012
    ..In this paper, we aim to demonstrate how these technologies together can change the way that drug discovery is accomplished...
  13. ncbi Web service infrastructure for chemoinformatics
    Xiao Dong
    Indiana University School of Informatics, Community Grids Laboratory, and Chemical Informatics and Cyberinfrastructure Collaboratory, Indiana University, Bloomington, Indiana 47408, USA
    J Chem Inf Model 47:1303-7. 2007
    ..In this paper, we describe this infrastructure, give some examples of its use, and then discuss our plans to use it as a platform for chemoinformatics application development in the future...
  14. ncbi Improving Usability and Accessibility of Cheminformatics Tools for Chemists through Cyberinfrastructure and Education
    Rajarshi Guha
    Indiana University School of Informatics, Bloomington, IN, USA
    In Silico Biol 11:41-60. 2011
    ....
  15. ncbi Counting clusters using R-NN curves
    Rajarshi Guha
    School of Informatics, Indiana University, Bloomington, Indiana 47406, USA
    J Chem Inf Model 47:1308-18. 2007
    ..Our results indicate that the R-NN curve algorithm is able to determine the natural number of clusters and is in general agreement the average silhouette width in identifying the optimal number of clusters...
  16. ncbi PubChem BioAssays as a data source for predictive models
    Bin Chen
    Indiana University School of Informatics, 901 East Tenth Street, Bloomington, IN 47408, United States
    J Mol Graph Model 28:420-6. 2010
    ....
  17. ncbi Extraction of CYP chemical interactions from biomedical literature using natural language processing methods
    Dazhi Jiao
    Indiana University School of Informatics, Bloomington, Indiana 47408, USA
    J Chem Inf Model 49:263-9. 2009
    ..9% to 98.5%, and the precision and the recall of the interaction extraction component are 76.0% and 82.6%, and for the overall system are 68.4% and 72.2%, respectively...