Ryan M - Search Results

1

Exome-Scale Discovery of Hotspot Mutation Regions in Human Cancer Using 3D Protein Structure.

Tokheim C, Bhattacharya R, Niknafs N, Gygax DM, Kim R, Ryan M, Masica DL, Karchin R. Tokheim C, et al. Among authors: ryan m. Cancer Res. 2016 Jul 1;76(13):3719-31. doi: 10.1158/0008-5472.CAN-15-3190. Epub 2016 Apr 28. Cancer Res. 2016. PMID: 27197156 Free PMC article.

2

CRAVAT 4: Cancer-Related Analysis of Variants Toolkit.

Masica DL, Douville C, Tokheim C, Bhattacharya R, Kim R, Moad K, Ryan MC, Karchin R. Masica DL, et al. Cancer Res. 2017 Nov 1;77(21):e35-e38. doi: 10.1158/0008-5472.CAN-17-0338. Cancer Res. 2017. PMID: 29092935 Free PMC article.

3

Integrated Informatics Analysis of Cancer-Related Variants.

Pagel KA, Kim R, Moad K, Busby B, Zheng L, Tokheim C, Ryan M, Karchin R. Pagel KA, et al. Among authors: ryan m. JCO Clin Cancer Inform. 2020 Mar;4:310-317. doi: 10.1200/CCI.19.00132. JCO Clin Cancer Inform. 2020. PMID: 32228266 Free PMC article.

4

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: ryan m. Bioinformatics. 2013 Mar 1;29(5):647-8. doi: 10.1093/bioinformatics/btt017. Epub 2013 Jan 16. Bioinformatics. 2013. PMID: 23325621 Free PMC article.

5

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: ryan m. 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.

6

Assessing the Pathogenicity of Insertion and Deletion Variants with the Variant Effect Scoring Tool (VEST-Indel).

Douville C, Masica DL, Stenson PD, Cooper DN, Gygax DM, Kim R, Ryan M, Karchin R. Douville C, et al. Among authors: ryan m. Hum Mutat. 2016 Jan;37(1):28-35. doi: 10.1002/humu.22911. Epub 2015 Oct 26. Hum Mutat. 2016. PMID: 26442818 Free PMC article.

7

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. Bioinformatics. 2009 Jun 1;25(11):1431-2. doi: 10.1093/bioinformatics/btp242. Epub 2009 Apr 15. Bioinformatics. 2009. PMID: 19369493 Free PMC article.

8

Bridging the Chromosome-centric and Biology/Disease-driven Human Proteome Projects: Accessible and Automated Tools for Interpreting the Biological and Pathological Impact of Protein Sequence Variants Detected via Proteogenomics.

Sajulga R, Mehta S, Kumar P, Johnson JE, Guerrero CR, Ryan MC, Karchin R, Jagtap PD, Griffin TJ. Sajulga R, et al. J Proteome Res. 2018 Dec 7;17(12):4329-4336. doi: 10.1021/acs.jproteome.8b00404. Epub 2018 Sep 5. J Proteome Res. 2018. PMID: 30130115

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: ryan mc. 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

A Galaxy Implementation of Next-Generation Clustered Heatmaps for Interactive Exploration of Molecular Profiling Data.

Broom BM, Ryan MC, Brown RE, Ikeda F, Stucky M, Kane DW, Melott J, Wakefield C, Casasent TD, Akbani R, Weinstein JN. Broom BM, et al. Among authors: ryan mc. Cancer Res. 2017 Nov 1;77(21):e23-e26. doi: 10.1158/0008-5472.CAN-17-0318. Cancer Res. 2017. PMID: 29092932 Free PMC article.

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