Bioinformatics Shared Resource

Publications

The REMBRANDT study, a large collection of genomic data from brain cancer patients. Gusev Y; Bhuvaneshwar K, Song L, Zenklusen JC, Fine H, Madhavan S. Nature Scientific Data. 2018; 5:180158

Overall survival in patients with pancreatic cancer receiving matched therapies following molecular profiling: a retrospective analysis of the Know Your Tumor registry trial. Pishvaian MJ, Blais EM, Brody JR, Lyons E, DeArbeloa P, Hendifar A, Mikhail S, Chung V, Sahai V, Sohal DPS, Bellakbira S, Thach D, Rahib L, Madhavan S, Matrisian LM, Petricoin EF 3^rd. Lancet Oncol. 2020;21(4):508-518.

A harmonized meta-knowledgebase of clinical interpretations of somatic genomic variants in cancer. Wagner AH, Walsh B, Mayfield G, Tamborero D, Sonkin D, Krysiak K, Deu-Pons J, Duren RP, Gao J, McMurry J, Patterson S, Del Vecchio Fitz C, Pitel BA, Sezerman OU, Ellrott K, Warner JL, Rieke DT, Aittokallio T, Cerami E, Ritter DI, Schriml LM, Freimuth RR, Haendel M, Raca G, Madhavan S, Baudis M, Beckmann JS, Dienstmann R, Chakravarty D, Li XS, Mockus S, Elemento O, Schultz N, Lopez-Bigas N, Lawler M, Goecks J, Griffith M, Griffith OL, Margolin AA. Nature Genetics. 2020; 52(4):448-457

Standard operating procedure for curation and clinical interpretation of variants in cancer. Danos AM, Krysiak K, Barnell EK, Coffman AC, McMichael JF, Kiwala S, Spies NC, Sheta LM, Pema SP, Kujan L, Clark KA, Wollam AZ, Rao S, Ritter DI, Sonkin D, Raca G, Lin WH, Grisdale CJ, Kim RH, Wagner AH, Madhavan S, Griffith M, Griffith OL. Genome Med. 2019; 11(1):76.

SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants. McCoy MD, Shivakumar V, Nimmagadda S, Jafri MS, Madhavan S.  BMC Bioinformatics. 2019; 20(1):171.

All publications supported by the Biomedical Informatics Shared Resource can be found here: https://icbi.georgetown.edu/about/impact/publications/