Noushin Niknafs
Noushin Niknafs
Postdoctoral Research Fellow, Johns Hopkins University
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Exome sequencing identifies frequent inactivating mutations in BAP1, ARID1A and PBRM1 in intrahepatic cholangiocarcinomas
Y Jiao, TM Pawlik, RA Anders, FM Selaru, MM Streppel, DJ Lucas, ...
Nature genetics 45 (12), 1470-1473, 2013
Evolution of neoantigen landscape during immune checkpoint blockade in non–small cell lung cancer
V Anagnostou, KN Smith, PM Forde, N Niknafs, R Bhattacharya, J White, ...
Cancer discovery 7 (3), 264-276, 2017
The genomic landscape of response to EGFR blockade in colorectal cancer
A Bertotti, E Papp, S Jones, V Adleff, V Anagnostou, B Lupo, M Sausen, ...
Nature 526 (7572), 263-267, 2015
High grade serous ovarian carcinomas originate in the fallopian tube
SI Labidi-Galy, E Papp, D Hallberg, N Niknafs, V Adleff, M Noe, ...
Nature communications 8 (1), 1-11, 2017
A combination of molecular markers and clinical features improve the classification of pancreatic cysts
S Springer, Y Wang, M Dal Molin, DL Masica, Y Jiao, I Kinde, A Blackford, ...
Gastroenterology 149 (6), 1501-1510, 2015
Mutational signature of aristolochic acid exposure as revealed by whole-exome sequencing
ML Hoang, CH Chen, VS Sidorenko, J He, KG Dickman, BH Yun, ...
Science translational medicine 5 (197), 197ra102-197ra102, 2013
Genome-wide cell-free DNA fragmentation in patients with cancer
S Cristiano, A Leal, J Phallen, J Fiksel, V Adleff, DC Bruhm, SŲ Jensen, ...
Nature 570 (7761), 385-389, 2019
Whole genome sequencing defines the genetic heterogeneity of familial pancreatic cancer
NJ Roberts, AL Norris, GM Petersen, ML Bondy, R Brand, S Gallinger, ...
Cancer discovery 6 (2), 166-175, 2016
Epigenetic therapy ties MYC depletion to reversing immune evasion and treating lung cancer
MJ Topper, M Vaz, KB Chiappinelli, CEDS Shields, N Niknafs, RWC Yen, ...
Cell 171 (6), 1284-1300. e21, 2017
CRAVAT: cancer-related analysis of variants toolkit
C Douville, H Carter, R Kim, N Niknafs, M Diekhans, PD Stenson, ...
Bioinformatics 29 (5), 647-648, 2013
Pathologic features of response to neoadjuvant anti-PD-1 in resected non-small-cell lung carcinoma: a proposal for quantitative immune-related pathologic response criteria (irPRC)
TR Cottrell, ED Thompson, PM Forde, JE Stein, AS Duffield, ...
Annals of Oncology 29 (8), 1853-1860, 2018
Ipilimumab plus nivolumab and DNA-repair defects in AR-V7-expressing metastatic prostate cancer
K Boudadi, DL Suzman, V Anagnostou, W Fu, B Luber, H Wang, ...
Oncotarget 9 (47), 28561, 2018
Exome-scale discovery of hotspot mutation regions in human cancer using 3D protein structure
C Tokheim, R Bhattacharya, N Niknafs, DM Gygax, R Kim, M Ryan, ...
Cancer research 76 (13), 3719-3731, 2016
Dynamics of tumor and immune responses during immune checkpoint blockade in non–small cell lung cancer
V Anagnostou, PM Forde, JR White, N Niknafs, C Hruban, J Naidoo, ...
Cancer research 79 (6), 1214-1225, 2019
MuPIT interactive: webserver for mapping variant positions to annotated, interactive 3D structures
N Niknafs, D Kim, RG Kim, M Diekhans, M Ryan, PD Stenson, DN Cooper, ...
Human genetics 132 (11), 1235-1243, 2013
Whole-genome sequencing of salivary gland adenoid cystic carcinoma
EM Rettig, CC Talbot, M Sausen, S Jones, JA Bishop, LD Wood, ...
Cancer Prevention Research 9 (4), 265-274, 2016
SubClonal hierarchy inference from somatic mutations: automatic reconstruction of cancer evolutionary trees from multi-region next generation sequencing
N Niknafs, V Beleva-Guthrie, DQ Naiman, R Karchin
PLoS Comput Biol 11 (10), e1004416, 2015
Multimodal genomic features predict outcome of immune checkpoint blockade in non-small-cell lung cancer
V Anagnostou, N Niknafs, K Marrone, DC Bruhm, JR White, J Naidoo, ...
Nature cancer 1 (1), 99-111, 2020
A machine learning approach for somatic mutation discovery
DE Wood, JR White, A Georgiadis, B Van Emburgh, S Parpart-Li, ...
Science translational medicine 10 (457), 2018
Evolution of neoantigen landscape during immune checkpoint blockade in non-small cell lung cancer. Cancer Discov. 2017; 7: 264–276. doi: 10.1158/2159-8290
V Anagnostou, KN Smith, PM Forde, N Niknafs, R Bhattacharya, J White, ...
CD-16-0828.[Europe PMC free article][Abstract][CrossRef][Google Scholar], 0
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