Computer-assisted reading in drug discovery

Expert Opinion on Drug Discovery

Volumn 2, Issue 3, 2007, Pages 299-304

  Peitsch, Manuel C ^a  

^a NOVARTIS PHARMA AG   (Switzerland)

Author keywords

Information integration; Literature mining; Scientific publishing; Text mining

Indexed keywords

DRUG;

ARTICLE; COMPUTER AIDED DESIGN; DATA BASE; DATA MINING; DOCUMENTATION; DRUG DESIGN; INFORMATION; LIBRARY SCIENCE; PATENT; PRIORITY JOURNAL; PUBLICATION; SCIENCE;

EID: 34447549202     PISSN: 17460441     EISSN: None     Source Type: Journal    
DOI: 10.1517/17460441.2.3.299     Document Type: Article

References (22)

1. HUNTER L, COHEN KB: Biomedical language processing: what's beyond PubMed? Mol Cell. (2006) 21:589-594.
2. JENSEN LJ, SARIC J, BORK P: Literature mining for the biologist: from information retrieval to biological discovery. Nat. Genetics (2006) 7:119-129.
3. CHO CR, LABOW M, REINHARDT M, VAN OOSTRUM J, PEITSCH MC: The application of systems biology to drug discovery: Curr. Opin. Chem. Biol. (2006) 10:294-302.
4. GRANDJEAN N, CHARPIOT B, PENA CA, PEITSCH MC: Competitive intelligence and patent analysis in drug discovery. Mining the competitive knowledge bases and patents. Drug Discov. Today: Technologies (2005) 3:211-215.
5. COOPER JW, KERSHENBAUM A: Discovery of protein - protein interactions using a combination of linguistic, statistical and graphical information. BMC Bioinformatics (2005) 6:143.
6. TEMKIN JM, GILDER MR: Extraction of protein interaction information from unstructured text using a context-free grammar. Bioinformatics (2003) 19:2046-2053.
7. DARASELIA N, YURYEV A, EGOROV S, NOVICHKOVA S, NIKITIN A, MAZO I: Extracting human protein interactions from Medline using a full-sentence parser. Bioinformatics (2004) 20:604-611.
8. NARAYANASWAMY M, RAVIKUMAR KE, VIJAY-SHANKER K: Beyond the clause: extraction of phosphorylation information from Medline abstracts. Bioinformatics (2005) 21:319-i327.
9. SAFRAN M, SOLOMON I, SHMUELI O et al.: GeneCards 2002: towards a complete, object-oriented, human gene compendium. Bioinformatics (2002) 18:1542-1543.
10. O'DONNELL JJ: Avatars of the Word: from papyrus to cyberspace. Harvard University Press Cambridge (1997).
11. WHEELER DL, BARRETT T, BENSON DA et al.: Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. (2006) 34:D173-180.
12. HANISCH D, FUNDEL K, MEVISSEN HT, ZIMMER R, FLUCK J: ProMiner: rule-based protein and gene entity recognition. BMC Bioinformatics (2005) 6(1 Suppl. S14):1-9.
13. COHEN AM, HERSH WR, DUBAY C, SPACKMAN K: Using co-occurrence network structure to extract synonymous gene and protein names from Medline abstracts. BMC Bioinformatics (2005) 6(103):1-15.
14. CHEN L, LIU H, FRIEDMAN C: Gene name ambiguity of eukaryotic nomenclatures. Bioinformatics (2005) 21:248-256.
15. GAUDAN S, KIRSCH H, REBHOLZ-SCHUHMANN D: Resolving abbreviations to their senses in Medline. Bioinformatics (2005) 21:3658-3664.
16. SCHIJVENAARS BJA, MONS B, WEEBER M et al.: Thesaurus-based disambiguation of gene symbols. BMC Bioinformatics (2005) 6:149.
17. DELLAVALLE RP, HESTER EJ, HEILIG LF etal.: Going, going, gone: lost internet references. Science (2003) 302:787-788.
18. ROMACKER M, GRANDJEAN N, PARISOT P et al.: The ultralink: an expert system for contextual hyperlinking in knowledge management. In: computer applications in Pharm. Res. and Development. Ekins S (Ed.), Wiley & Sons, New York; (2006):729-753.
19. HOFFMANN R, VALENCIA A: Implementing the iHOP concept for navigation of biomedical literature. Bioinformatics (2005) S2:ii252-ii258.
20. GOOD BM, KAWAS EA, KUO BY, WILKINSON MD: iHOPerator: user-scripting a personalized bioinformatics Web, starting with the iHOP website. BMC Bioinformatics (2006) 7:534.
21. NATARAJAN J, MULAY N, DESESA C, HACK CJ, DUBITZKY W, BREMER EG: A grid infrastructure for text mining of full text articles and creation of a knowledge base of gene relations. Lecture notes in bioinformatics (2005) 3745:101-108.
22. NATARAJAN J, HAINES C, BERGLUND B et al.: GetltFull - A tool for downloading and preprocessing full-text journal articles, Lecture notes in computer science (2006) 3869:139-145