Karchin R - Search Results

1

MuPIT interactive: webserver for mapping variant positions to annotated, interactive 3D structures.

Niknafs N, Kim D, Kim R, Diekhans M, Ryan M, Stenson PD, Cooper DN, Karchin R. Niknafs N, et al. Among authors: karchin r. Hum Genet. 2013 Nov;132(11):1235-43. doi: 10.1007/s00439-013-1325-0. Epub 2013 Jun 23. Hum Genet. 2013. PMID: 23793516 Free PMC article.

2

Combining local-structure, fold-recognition, and new fold methods for protein structure prediction.

Karplus K, Karchin R, Draper J, Casper J, Mandel-Gutfreund Y, Diekhans M, Hughey R. Karplus K, et al. Among authors: karchin r. Proteins. 2003;53 Suppl 6:491-6. doi: 10.1002/prot.10540. Proteins. 2003. PMID: 14579338

3

LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources.

Karchin R, Diekhans M, Kelly L, Thomas DJ, Pieper U, Eswar N, Haussler D, Sali A. Karchin R, et al. Bioinformatics. 2005 Jun 15;21(12):2814-20. doi: 10.1093/bioinformatics/bti442. Epub 2005 Apr 12. Bioinformatics. 2005. PMID: 15827081

4

Next generation tools for the annotation of human SNPs.

Karchin R. Karchin R. Brief Bioinform. 2009 Jan;10(1):35-52. doi: 10.1093/bib/bbn047. Brief Bioinform. 2009. PMID: 19181721 Free PMC article.

5

LS-SNP/PDB: annotated non-synonymous SNPs mapped to Protein Data Bank structures.

Ryan M, Diekhans M, Lien S, Liu Y, Karchin R. Ryan M, et al. Among authors: karchin r. Bioinformatics. 2009 Jun 1;25(11):1431-2. doi: 10.1093/bioinformatics/btp242. Epub 2009 Apr 15. Bioinformatics. 2009. PMID: 19369493 Free PMC article.

6

CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer.

Wong WC, Kim D, Carter H, Diekhans M, Ryan MC, Karchin R. Wong WC, et al. Among authors: karchin r. Bioinformatics. 2011 Aug 1;27(15):2147-8. doi: 10.1093/bioinformatics/btr357. Epub 2011 Jun 17. Bioinformatics. 2011. PMID: 21685053 Free PMC article.

7

Yeast two-hybrid junk sequences contain selected linear motifs.

Liu Y, Woods NT, Kim D, Sweet M, Monteiro AN, Karchin R. Liu Y, et al. Among authors: karchin r. Nucleic Acids Res. 2011 Oct;39(19):e128. doi: 10.1093/nar/gkr600. Epub 2011 Jul 23. Nucleic Acids Res. 2011. PMID: 21785140 Free PMC article.

8

Phenotype-optimized sequence ensembles substantially improve prediction of disease-causing mutation in cystic fibrosis.

Masica DL, Sosnay PR, Cutting GR, Karchin R. Masica DL, et al. Among authors: karchin r. Hum Mutat. 2012 Aug;33(8):1267-74. doi: 10.1002/humu.22110. Epub 2012 May 22. Hum Mutat. 2012. PMID: 22573477 Free PMC article.

9

CRAVAT: cancer-related analysis of variants toolkit.

Douville C, Carter H, Kim R, Niknafs N, Diekhans M, Stenson PD, Cooper DN, Ryan M, Karchin R. Douville C, et al. Among authors: karchin r. Bioinformatics. 2013 Mar 1;29(5):647-8. doi: 10.1093/bioinformatics/btt017. Epub 2013 Jan 16. Bioinformatics. 2013. PMID: 23325621 Free PMC article.

10

A hybrid likelihood model for sequence-based disease association studies.

Chen YC, Carter H, Parla J, Kramer M, Goes FS, Pirooznia M, Zandi PP, McCombie WR, Potash JB, Karchin R. Chen YC, et al. Among authors: karchin r. PLoS Genet. 2013;9(1):e1003224. doi: 10.1371/journal.pgen.1003224. Epub 2013 Jan 24. PLoS Genet. 2013. PMID: 23358228 Free PMC article.

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