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Items: 9

1.

Scaling computational genomics to millions of individuals with GPUs.

Taylor-Weiner A, Aguet F, Haradhvala NJ, Gosai S, Anand S, Kim J, Ardlie K, Van Allen EM, Getz G.

Genome Biol. 2019 Nov 1;20(1):228. doi: 10.1186/s13059-019-1836-7.

2.

Passenger Hotspot Mutations in Cancer.

Hess JM, Bernards A, Kim J, Miller M, Taylor-Weiner A, Haradhvala NJ, Lawrence MS, Getz G.

Cancer Cell. 2019 Sep 16;36(3):288-301.e14. doi: 10.1016/j.ccell.2019.08.002.

PMID:
31526759
3.

RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues.

Yizhak K, Aguet F, Kim J, Hess JM, Kübler K, Grimsby J, Frazer R, Zhang H, Haradhvala NJ, Rosebrock D, Livitz D, Li X, Arich-Landkof E, Shoresh N, Stewart C, Segrè AV, Branton PA, Polak P, Ardlie KG, Getz G.

Science. 2019 Jun 7;364(6444). pii: eaaw0726. doi: 10.1126/science.aaw0726.

PMID:
31171663
4.

Analyzing Frequently Mutated Genes and the Association With Tumor Mutation Load.

Maruvka YE, Haradhvala NJ, Getz G.

JAMA Oncol. 2019 Apr 1;5(4):577. doi: 10.1001/jamaoncol.2019.0127. No abstract available.

PMID:
30844029
5.

Quantification of somatic mutation flow across individual cell division events by lineage sequencing.

Brody Y, Kimmerling RJ, Maruvka YE, Benjamin D, Elacqua JJ, Haradhvala NJ, Kim J, Mouw KW, Frangaj K, Koren A, Getz G, Manalis SR, Blainey PC.

Genome Res. 2018 Dec;28(12):1901-1918. doi: 10.1101/gr.238543.118. Epub 2018 Nov 20.

6.

Structural Alterations Driving Castration-Resistant Prostate Cancer Revealed by Linked-Read Genome Sequencing.

Viswanathan SR, Ha G, Hoff AM, Wala JA, Carrot-Zhang J, Whelan CW, Haradhvala NJ, Freeman SS, Reed SC, Rhoades J, Polak P, Cipicchio M, Wankowicz SA, Wong A, Kamath T, Zhang Z, Gydush GJ, Rotem D; PCF/SU2C International Prostate Cancer Dream Team, Love JC, Getz G, Gabriel S, Zhang CZ, Dehm SM, Nelson PS, Van Allen EM, Choudhury AD, Adalsteinsson VA, Beroukhim R, Taplin ME, Meyerson M.

Cell. 2018 Jul 12;174(2):433-447.e19. doi: 10.1016/j.cell.2018.05.036. Epub 2018 Jun 18.

7.

Distinct mutational signatures characterize concurrent loss of polymerase proofreading and mismatch repair.

Haradhvala NJ, Kim J, Maruvka YE, Polak P, Rosebrock D, Livitz D, Hess JM, Leshchiner I, Kamburov A, Mouw KW, Lawrence MS, Getz G.

Nat Commun. 2018 May 1;9(1):1746. doi: 10.1038/s41467-018-04002-4.

8.

Analysis of somatic microsatellite indels identifies driver events in human tumors.

Maruvka YE, Mouw KW, Karlic R, Parasuraman P, Kamburov A, Polak P, Haradhvala NJ, Hess JM, Rheinbay E, Brody Y, Koren A, Braunstein LZ, D'Andrea A, Lawrence MS, Bass A, Bernards A, Michor F, Getz G.

Nat Biotechnol. 2017 Oct;35(10):951-959. doi: 10.1038/nbt.3966. Epub 2017 Sep 11.

PMID:
28892075
9.

Mutational Strand Asymmetries in Cancer Genomes Reveal Mechanisms of DNA Damage and Repair.

Haradhvala NJ, Polak P, Stojanov P, Covington KR, Shinbrot E, Hess JM, Rheinbay E, Kim J, Maruvka YE, Braunstein LZ, Kamburov A, Hanawalt PC, Wheeler DA, Koren A, Lawrence MS, Getz G.

Cell. 2016 Jan 28;164(3):538-49. doi: 10.1016/j.cell.2015.12.050. Epub 2016 Jan 21.

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