Snpdbe: Constructing an nsSnp functional impacts database

Bioinformatics

Volumn 28, Issue 4, 2012, Pages 601-602

  Schaefer, Christian ^a   Meier, Alice ^a   Rost, Burkhard ^a   Bromberg, Yana ^b  

^a TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^b RUTGERS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN;

ALGORITHM; AMINO ACID SUBSTITUTION; ARTICLE; CHEMISTRY; GENETIC DATABASE; GENETICS; HUMAN; INTERNET; SINGLE NUCLEOTIDE POLYMORPHISM;

ALGORITHMS; AMINO ACID SUBSTITUTION; DATABASES, GENETIC; HUMANS; INTERNET; POLYMORPHISM, SINGLE NUCLEOTIDE; PROTEINS;

EID: 84857186752     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btr705     Document Type: Article

References (18)

1. 1000_Genomes_Project_Consortium (2010) A map of human genome variation from population-scale sequencing. Nature, 467, 1061-1073.
2. Altschul, S.F. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
3. Amberger, J. et al. (2009) McKusick's Online Mendelian Inheritance in Man (OMIM). Nucleic Acids Res., 37, D793-D796.
4. Bairoch, A. et al. (2005) The Universal Protein Resource (UniProt). Nucleic Acids Res., 33, D154-D159.
5. Berman, H. et al. (2000) The Protein Data Bank. Nucleic Acids Res., 28, 235-242.
6. Bromberg, Y. and Rost, B. (2007) SNAP: predict effect of non-synonymous polymorphisms on function. Nucleic Acids Res., 35, 3823-3835.
7. Chelala, C. et al. (2009) SNPnexus: a web database for functional annotation of newly discovered and public domain single nucleotide polymorphisms. Bioinformatics, 25, 655-661.
8. Jegga, A.G. et al. (2007) PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease. Nucleic Acids Res., 35, D700-D706.
9. Kawabata, T. et al. (1999) The Protein Mutant Database. Nucleic Acids Res., 27, 355-357.
10. Mooney, S.D. and Altman, R.B. (2003) MutDB: annotating human variation with functionally relevant data. Bioinformatics, 19, 1858-1860.
11. Ng, P.C. and Henikoff, S. (2001) Predicting deleterious amino acid substitutions. Genome Res., 11, 863-874.
12. Pruitt, K.D. et al. (2007) NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res., 35, D61-D65.
13. Reva, B. et al. (2011) Predicting the functional impact of protein mutations: application to cancer genomics. Nucleic Acids Res., 39, e118.
14. Sherry, S.T. et al. (2001) dbSNP: the NCBI database of genetic variation. Nucleic Acids Res., 29, 308-311.
15. Sunyaev, S.R. et al. (1999) PSIC: profile extraction from sequence alignments with position-specific counts of independent observations. Protein Eng., 12, 387-394.
16. Thorn, C.F. et al. (2010) Pharmacogenomics and bioinformatics: PharmGKB. Pharmacogenomics, 11, 501-505.
17. Wang, K. et al. (2010)ANNOVAR: functional annotation of genetic variants from highthroughput sequencing data. Nucleic Acids Res., 38, e164.
18. Wang, P. et al. (2006) SNP Function Portal: a web database for exploring the function implication of SNP alleles. Bioinformatics, 22, e523-e529.