Karchin R - Search Results

1

Detecting species-site dependencies in large multiple sequence alignments.

Schwarz R, Seibel PN, Rahmann S, Schoen C, Huenerberg M, Müller-Reible C, Dandekar T, Karchin R, Schultz J, Müller T. Schwarz R, et al. Among authors: karchin r. Nucleic Acids Res. 2009 Oct;37(18):5959-68. doi: 10.1093/nar/gkp634. Epub 2009 Aug 6. Nucleic Acids Res. 2009. PMID: 19661281 Free PMC article.

2

Roles of DNA polymerase I in leading and lagging-strand replication defined by a high-resolution mutation footprint of ColE1 plasmid replication.

Allen JM, Simcha DM, Ericson NG, Alexander DL, Marquette JT, Van Biber BP, Troll CJ, Karchin R, Bielas JH, Loeb LA, Camps M. Allen JM, et al. Among authors: karchin r. Nucleic Acids Res. 2011 Sep 1;39(16):7020-33. doi: 10.1093/nar/gkr157. Epub 2011 May 26. Nucleic Acids Res. 2011. PMID: 21622658 Free PMC article.

3

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.

4

Network Analysis of Protein Adaptation: Modeling the Functional Impact of Multiple Mutations.

Beleva Guthrie V, Masica DL, Fraser A, Federico J, Fan Y, Camps M, Karchin R. Beleva Guthrie V, et al. Among authors: karchin r. Mol Biol Evol. 2018 Jun 1;35(6):1507-1519. doi: 10.1093/molbev/msy036. Mol Biol Evol. 2018. PMID: 29522102 Free PMC article.

5

Network models of TEM β-lactamase mutations coevolving under antibiotic selection show modular structure and anticipate evolutionary trajectories.

Guthrie VB, Allen J, Camps M, Karchin R. Guthrie VB, et al. Among authors: karchin r. PLoS Comput Biol. 2011 Sep;7(9):e1002184. doi: 10.1371/journal.pcbi.1002184. Epub 2011 Sep 22. PLoS Comput Biol. 2011. PMID: 21966264 Free PMC article.

6

MODBASE, a database of annotated comparative protein structure models and associated resources.

Pieper U, Eswar N, Webb BM, Eramian D, Kelly L, Barkan DT, Carter H, Mankoo P, Karchin R, Marti-Renom MA, Davis FP, Sali A. Pieper U, et al. Among authors: karchin r. Nucleic Acids Res. 2009 Jan;37(Database issue):D347-54. doi: 10.1093/nar/gkn791. Epub 2008 Oct 23. Nucleic Acids Res. 2009. PMID: 18948282 Free PMC article.

7

MODBASE: a database of annotated comparative protein structure models and associated resources.

Pieper U, Eswar N, Davis FP, Braberg H, Madhusudhan MS, Rossi A, Marti-Renom M, Karchin R, Webb BM, Eramian D, Shen MY, Kelly L, Melo F, Sali A. Pieper U, et al. Among authors: karchin r. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D291-5. doi: 10.1093/nar/gkj059. Nucleic Acids Res. 2006. PMID: 16381869 Free PMC article.

8

Functional impact of missense variants in BRCA1 predicted by supervised learning.

Karchin R, Monteiro AN, Tavtigian SV, Carvalho MA, Sali A. Karchin R, et al. PLoS Comput Biol. 2007 Feb 16;3(2):e26. doi: 10.1371/journal.pcbi.0030026. Epub 2006 Dec 28. PLoS Comput Biol. 2007. PMID: 17305420 Free PMC article.

9

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.

10

Assessment of the Clinical Relevance of BRCA2 Missense Variants by Functional and Computational Approaches.

Guidugli L, Shimelis H, Masica DL, Pankratz VS, Lipton GB, Singh N, Hu C, Monteiro ANA, Lindor NM, Goldgar DE, Karchin R, Iversen ES, Couch FJ. Guidugli L, et al. Among authors: karchin r. Am J Hum Genet. 2018 Feb 1;102(2):233-248. doi: 10.1016/j.ajhg.2017.12.013. Epub 2018 Jan 25. Am J Hum Genet. 2018. PMID: 29394989 Free PMC article.

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