GRASP v2.0: An update on the Genome-Wide Repository of Associations between SNPs and Phenotypes

Nucleic Acids Research

Volumn 43, Issue D1, 2015, Pages D799-D804

  Eicher, John D ^a   Landowski, Christa ^a   Stackhouse, Brian ^a   Sloan, Arielle ^a   Chen, Wenjie ^a   Jensen, Nicole ^a   Lien, Ju Ping ^a   Leslie, Richard ^a,b   Johnson, Andrew D ^a  

^a FRAMINGHAM HEART STUDY   (United States)

^b UNIVERSITY OF MASSACHUSETTS MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER INTERFACE; COMPUTER PROGRAM; CONTROLLED STUDY; DATA EXTRACTION; DNA METHYLATION; GENE EXPRESSION; GENETIC ASSOCIATION; GENETIC DATABASE; INFORMATION RETRIEVAL; INFORMATION SYSTEM; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS; SINGLE NUCLEOTIDE POLYMORPHISM; HUMAN; INTERNET; NUCLEIC ACID DATABASE; PHENOTYPE;

DATABASES, NUCLEIC ACID; GENOME-WIDE ASSOCIATION STUDY; HUMANS; INTERNET; PHENOTYPE; POLYMORPHISM, SINGLE NUCLEOTIDE;

EID: 84941053261     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gku1202     Document Type: Article

References (22)

1. Manolio, T. A. (2009) Cohort studies and the genetics of complex disease. Nat. Genet., 41, 5-6.
2. Pearson, T. A. and Manolio, T. A. (2008) How to interpret a genome-wide association study. JAMA, 299, 1335-1344.
3. Leslie, R., O'Donnell, C. J. and Johnson, A. D. (2014) GRASP: analysis of genotype-phenotype results from 1390 genome-wide association studies and corresponding open access database. Bioinformatics, 30, i185-i194.
4. Johnson, A. D. and O'Donnell, C. J. (2009) An open access database of genome-wide association results. BMC Med. Genet., 10, 1-17.
5. Hindorff, L. A., Sethupathy, P., Junkins, H. A., Ramos, E. M., Mehta, J. P., Collins, F. S. and Manolio, T. A. (2009) Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc. Natl Acad. Sci. U. S. A., 106, 9362-9367.
6. Kumar, P., Henikoff, S. and Ng, P. C. (2009) Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm. Nat. Protoc., 4, 1073-1081.
7. Adzhubei, I. A., Schmidt, S., Peshkin, L., Ramensky, V. E., Gerasimova, A., Bork, P., Kondrashov, A. S. and Sunyaev, S. R. (2010) A method and server for predicting damaging missense mutations. Nat. Methods, 7, 248-249.
8. Kozomara, A. and Griffths-Jones, S. (2014) miRBase: annotating high confdence microRNAs using deep sequencing data. Nucleic Acids Res., 42, D68-D73.
9. Ziebarth, J. D., Bhattacharya, A., Chen, A. and Cui, Y. (2012) PolymiRTS Database 2.0: linking polymorphisms in microRNA target sites with human diseases and complex traits. Nucleic Acids Res., 40, D216-D221.
10. Griffth, O. L., Montgomery, S. B., Bernier, B., Chu, B., Kasaian, K., Aerts, S., Mahony, S., Sleumer, M. C., Bilenky, M., Haeussler, M. et al. (2008) ORegAnno: an open-access community-driven resource for regulatory annotation. Nucleic Acids Res., 36, D107-D113.
11. Karolchik, D., Barber, G. P., Casper, J., Clawson, H., Cline, M. S., Doekhans, M., Dreszer, T. R., Fujita, P. A., Guruvadoo, L., Haeussler, M. et al. (2014) The UCSC Genome Browser database: 2014 update. Nucleic Acids Res., 42, D764-D770.
12. Visel, A., Minovitsky, S., Dubchak, I. and Pennacchio, L. A. (2007) VISTA Enhancer Browser-a database of tissue-specific human enhancers. Nucleic Acids Res., 35, D88-D92.
13. UniProt Consortium. (2014) Activities at the Universal Protein Resource (UniProt). Nucleic Acids Res., 42, D191-D198.
14. Johnson, A. D., Leslie, R. and O'Donnell, CJ. (2011) Temporal trends in results availability form genome-wide association studies. PLoS Genet., 7, e1002269.
15. Paltoo, D. N., Rodriguez, L. L., Feolo, M., Gillanders, E., Ramos, E. M., Rutter, J. L., Sherry, S., Wang, V. O., Bailey, A., Baker, R. et al. (2014) Data use under the NIH GWAS Data Sharing Policy and future directions. Nat. Genet., 46, 934-938.
16. Zhang, X., Gierman, H. J., Levy, D., Plump, A., Dobrin, R., Goring, H. H., Curran, J. E., Johnson, M. P., Blangero, J., Kim, S. K. et al. (2014) Synthesis of 53 tissue and cell line expression QTL datasets reveals master eQTLs. BMC Genomics, 15, 532.
17. Esteller, M. (2011) Non-coding RNAs in human disease. Nat. Rev. Genet., 12, 861-874.
18. Maurano, M. T., Humbert, R., Rynes, E., Thurman, R. E., Haugen, E., Wang, H., Reynolds, A. P., Sandstrom, R., Qu, H., Brody, J. et al. (2012) Systematic localization of common disease-associated variation in regulatory DNA. Science, 337, 1190-1195.
19. Encode Project Consortium. (2004) The ENCODE (ENCyclopedia Of DNA Elements) Project. Science, 306, 636-640.
20. Encode Project Consortium. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447, 799-816.
21. Kellis, M., Wold, B., Snyder, M. P., Bernstein, B. E., Kundaje, A., Marinov, G. K., Ward, L. D., Birney, E., Crawford, G. E., Dekker, J. et al. (2014) Defining functional DNA elements in the human genome. Proc. Natl Acad. Sci. U. S. A., 111, 6131-6138.
22. Wu, M. C., Lee, S., Cai, T., Li, Y., Boehnke, M. and Lin, X. (2011) Rare variant association testing for sequencing data using the sequence kernel association test (SKAT). Am. J. Hum. Genet., 89, 82-93.