GFINDer: Genetic disease and phenotype location statistical analysis and mining of dynamically annotated gene lists

Nucleic Acids Research

Volumn 33, Issue SUPPL. 2, 2005, Pages

  Masseroli, Marco ^a   Galati, Osvaldo ^a   Pinciroli, Francesco ^a  

^a POLITECNICO DI MILANO   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; AUTOMATION; CLINICAL STUDY; COMPUTER INTERFACE; COMPUTER PROGRAM; CONTROLLED STUDY; DISEASE CLASSIFICATION; GENE LOCATION; GENE STRUCTURE; GENETIC ANALYSIS; GENETIC DATABASE; GENETIC DISORDER; HUMAN; INFORMATION PROCESSING; INTERNET; MOLECULAR DYNAMICS; NOMENCLATURE; NUCLEOTIDE SEQUENCE; PHENOTYPE; PRIORITY JOURNAL; STATISTICAL ANALYSIS; STRUCTURE ANALYSIS; CLASSIFICATION; GENETICS; LINGUISTICS; VALIDATION STUDY; ACCESS TO INFORMATION; BIOINFORMATICS; CLIENT SERVER APPLICATION; GENE IDENTIFICATION; GENOME ANALYSIS; NONHUMAN;

DATA INTERPRETATION, STATISTICAL; DATABASES, GENETIC; GENETIC DISEASES, INBORN; HUMANS; INTERNET; PHENOTYPE; SOFTWARE; USER-COMPUTER INTERFACE; VOCABULARY, CONTROLLED;

EID: 23144458671     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gki454     Document Type: Article

References (27)

1. Galperin,M.Y. (2005) The Molecular Biology Database Collection: 2005 update. Nucleic Acids Res., 33, D5-D24.
2. Kanehisa,M. and Bork,P. (2003) Bioinformatics in the post-sequence era. Nature Genet., 33, S305-S310.
3. Rhodes,D.R. and Chinnaiyan,A.M. (2004) Bioinformatics strategies for translating genome-wide expression analyses into clinically useful cancer markers. Ann. NY Acad. Sci., 1020, 32-40.
4. Schulze-Kremer,S. (2002) Ontologies for molecular biology and bioinformatics. In Silico Biol., 2, 179-193.
5. Stevens,R., Goble,C.A. and Bechhofer,S. (2000) Ontology-based knowledge representation for bioinformatics. Brief Bioinformatics, 1, 398-414.
6. Soukup,T. and Davidson,I. (2002) Visual Data Mining: Techniques and Tools for Data Visualization and Mining. John Wiley & Sons, NY.
7. Masseroli,M., Martucci,D. and Pinciroli,F. (2004) GFINDer: Genome function integrated discoverer through dynamic annotation, statistical analysis, and mining. Nucleic Acids Res., 32, W293-W300.
8. McKusick,V.A. (1998) Mendelian Inheritance in Man. A Catalog of Human Genes and Genetic Disorders, 12th edn. John Hopkins University Press, Baltimore, MD.
9. Hamosh,A., Scott,A.F., Amberger,J.S., Bocchini,C.A. and McKusick,V.A. (2005) Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res., 33, D514-D517.
10. Maglott,D., Ostell,J., Pruitt,K.D. and Tatusova,T. (2005) Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res., 33, D54-D58.
11. Casella,G. and Berger,R.L. (2002) Statistical Inference, 2nd edn. Duxbury Press, Belmont, CA.
12. Fisher,L.D. and van Belle,G. (1993) Biostatistics: A Methodology for the Health Sciences. John Wiley & Sons, NY.
13. Benjamini,Y. and Hochberg,Y. (1995) Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. R. Stat. Soc., 57, 289-300.
14. The Gene Ontology Consortium (2000), Gene Ontology: Tool for the unification of biology. Nature Genet., 25, 25-29.
15. Kanz,C., Aldebert,P., Althorpe,N., Baker,W., Baldwin,A., Bates,K., Browne,P., van den Broek,A., Castro,M., Cochrane,G. et al. (2005) The EMBL nucleotide sequence database. Nucleic Acids Res., 33, D29-D33.
16. Kanehisa,M., Goto,S., Kawashima,S., Okuno,Y. and Hattori,M. (2004) The KEGG resource for deciphering the genome. Nucleic Acids Res., 32, D277-D280.
17. Boeckmann,B., Bairoch,A., Apweiler,R., Blatter,M.C., Estreicher,A., Gasteiger,E., Martin,M.J., Michoud,K., O'Donovan,C., Phan,I., Pilbout,S. and Schneider,M. (2003) The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res., 31, 365-370.
18. Liu,G., Loraine,A.E., Shigeta,R., Cline,M., Cheng,J., Valmeekam,V., Sun,S., Kulp,D. and Siani-Rose,M.A. (2003) NetAffx: Affymetrix probesets and annotations. Nucleic Acids Res., 31, 82-86.
19. Adeghate,E. (2004) Molecular and cellular basis of the aetiology and management of diabetic cardiomyopathy: A short review. Mol. Cell. Biochem., 261, 187-191.
20. Xu,R., Li,H., Tse,L.Y., Kung,H.F., Lu,H. and Lam,K.S. (2003) Diabetes gene therapy: Potential and challenges. Curr. Gene Ther., 3, 65-82.
21. Dennis,G.,Jr, Sherman,B.T., Hosack,D.A., Yang,J., Gao,W., Lane,H.C. and Lempicki,R.A. (2003) DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol., 4, P3.
22. Al-Shahrour,A.F., Díaz-Uriarte,R. and Dopazo,J. (2004) FatiGO: A web tool for finding significant associations of gene ontology terms with groups of genes. Bioinformatics, 20, 578-580.
23. Zeeberg,B.R., Feng,W., Wang,G., Wang,M.D., Fojo,A.T., Sunshine,M., Narasimhan,S., Kane,D.W., Reinhold,W.C., Lababidi,S. et al. (2003) GoMiner: A resource for biological interpretation of genomic and proteomic data. Genome Biol., 4, R28.
24. Zhang,B., Schmoyer,D., Kirov,S. and Snoddy,J. (2004) GOTree Machine (GOTM): A web-based platform for interpreting sets of interesting genes using gene ontology hierarchies. BMC Bioinformatics, 5, 16.
25. Khatri,P., Bhavsar,P., Bawa,G. and Draghici,S. (2004) Onto-Tools: An ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments. Nucleic Acids Res., 32, W449-W456.
26. Phillips,T.J. and Belknap,J.K. (2002) Complex-trait genetics: Emergence of multivariate strategies. Nature Rev. Neurosci., 3, 478-485.
27. Cantor,M.N. and Lussier,Y.A. (2004) Mining OMIM for insight into complex diseases. Medinfo, 2004, 753-757.