MeSHing molecular sequences and clinical trials: A feasibility study

Journal of Biomedical Informatics

Volumn 43, Issue 3, 2010, Pages 442-450

  Chen, Elizabeth S ^a,b   Sarkar, Indra Neil ^a,b  

^a UNIVERSITY OF VERMONT COLLEGE OF MEDICINE   (United States)

^b NONE   (United States)

Author keywords

Bench to bedside; ClinicalTrials.gov; GenBank; MeSH; Metadata analysis; PubMed MEDLINE; Translational bioinformatics

Indexed keywords

CLINICAL TRIAL; CLINICALTRIALS.GOV; DESCRIPTORS; FEASIBILITY STUDIES; GENBANK; MEDICAL SUBJECT HEADINGS; METADATA ANALYSIS;

BIOINFORMATICS; CONTENT BASED RETRIEVAL; DECISION MAKING; EXPERIMENTS; GENES; MEDICAL APPLICATIONS; PLANNING; RESOURCE ALLOCATION;

METADATA;

ARTICLE; BIOINFORMATICS; CLINICAL DATA REPOSITORY; CLINICAL RESEARCH; CORRELATION ANALYSIS; FEASIBILITY STUDY; GENBANK; GENE SEQUENCE; HUMAN; MEDICAL LITERATURE; MEDLINE; MOLECULAR GENETICS; PRIORITY JOURNAL; CLINICAL TRIAL (TOPIC); MEDICAL SUBJECT HEADINGS;

CLINICAL TRIALS AS TOPIC; FEASIBILITY STUDIES; MEDICAL SUBJECT HEADINGS; MOLECULAR SEQUENCE DATA;

EID: 77952745762     PISSN: 15320464     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbi.2009.10.003     Document Type: Article

References (26)

1. Mitchell J.A., McCray A.T., and Bodenreider O. From phenotype to genotype: issues in navigating the available information resources. Methods Inf Med 42 5 (2003) 557-563
2. Burgun A., and Bodenreider O. Accessing and integrating data and knowledge for biomedical research. Yearb Med Inform (2008) 91-101
3. Donelson L., Tarczy-Hornoch P., Mork P., Dolan C., Mitchell J.A., Barrier M., et al. The BioMediator system as a data integration tool to answer diverse biologic queries. Stud Health Technol Inform 107 Pt. 2 (2004) 768-772
4. Lindberg D., and Humphreys B. Rising expectations: access to biomedical information. Yearb Med Inform (2008) 165-172
5. Benson D.A., Karsch-Mizrachi I., Lipman D.J., Ostell J., and Sayers E.W. GenBank. Nucleic Acids Res 37 Database issue (2009) D26-D31
6. McCray A. Better access to information about clinical trials. Ann Intern Med 133 8 (2000) 609-614
7. McCray A., and Ide N. Design and implementation of a national clinical trials registry. J Am Med Inform Assoc 7 3 (2000) 313-323
8. Sayers E.W., Barrett T., Benson D.A., Bryant S.H., Canese K., Chetvernin V., et al. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 37 Database issue (2009) D5-D15
9. Baxevanis AD. Searching NCBI databases using Entrez. Curr Protoc Bioinform 2008;Chapter 1:Unit 1 3.
10. Lindberg D.A., and Schoolman H.M. The National Library of Medicine and medical informatics. West J Med 145 6 (1986) 786-790
11. Miller H., Norton C., and Sarkar I. GenBank and PubMed: how connected are they?. BMC Res Notes 2 (2009) 101
12. Cantor M., Sarkar I., Bodenreider O., and Lussier Y. Genestrace: phenomic knowledge discovery via structured terminology. Pac Symp Biocomput (2005) 103-114
13. Sarkar I., Cantor M., Gelman R., Hartel F., and Lussier Y. Linking biomedical language information and knowledge resources: GO and UMLS. Pac Symp Biocomput (2003) 439-450
14. Sewell W. Medical Subject Headings in Medlars. Bull Med Libr Assoc 52 (1964) 164-170
15. Sperzel W.D., Abarbanel R.M., Nelson S.J., Erlbaum M.S., Sherertz D.D., Tuttle M.S., et al. Biomedical database inter-connectivity: an experiment linking MIM, GENBANK, and META-1 via MEDLINE. Proc Annu Symp Comput Appl Med Care (1991) 190-193
16. Srinivasan P., and Rindflesch T. Exploring text mining from MEDLINE. Proc AMIA Symp (2002) 722-726
17. Muller H.M., Kenny E.E., and Sternberg P.W. Textpresso: an ontology-based information retrieval and extraction system for biological literature. PLoS Biol 2 11 (2004) e309
18. Lussier Y., Borlawsky T., Rappaport D., Liu Y., and Friedman C. PhenoGO: assigning phenotypic context to gene ontology annotations with natural language processing. Pac Symp Biocomput (2006) 64-75
19. ftp://ftp.ncbi.nih.gov/genbank/.
20. http://www.nlm.nih.gov/bsd/mms/medlineelements.html.
21. Madden T.L., Tatusov R.L., and Zhang J. Applications of network BLAST server. Methods Enzymol 266 (1996) 131-141
22. Gillen J., Tse T., Ide N., and McCray A. Design, implementation and management of a web-based data entry system for ClinicalTrials.gov. Stud Health Technol Inform 107 Pt. 2 (2004) 1466-1470
23. http://prsinfo.clinicaltrials.gov/definitions.html.
24. http://www.clinicaltrials.gov/ct2/html/images/info/public.dtd.
25. http://www.ncbi.nlm.nih.gov/RefSeq/.
26. http://www.ncbi.nlm.nih.gov/unigene.