James Lindsay
James Lindsay
Associate Director of Knowledge Systems Group, Dana-Farber Cancer Institute
Verified email at - Homepage
Cited by
Cited by
AACR Project GENIE: powering precision medicine through an international consortium
AACR Project Genie Consortium, AACR Project GENIE Consortium, ...
Cancer discovery 7 (8), 818-831, 2017
Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development
MB Renfree, AT Papenfuss, JE Deakin, J Lindsay, T Heider, K Belov, ...
Genome biology 12, 1-26, 2011
Association of high tumor mutation burden in non–small cell lung cancers with increased immune infiltration and improved clinical outcomes of PD-L1 blockade across PD-L1 …
B Ricciuti, X Wang, JV Alessi, H Rizvi, NR Mahadevan, YY Li, A Polio, ...
JAMA oncology 8 (8), 1160-1168, 2022
Serologic response to messenger RNA coronavirus disease 2019 vaccines in inflammatory bowel disease patients receiving biologic therapies
SY Wong, R Dixon, VM Pazos, S Gnjatic, JF Colombel, K Cadwell, S Gold, ...
Gastroenterology 161 (2), 715-718. e4, 2021
Analysis and visualization of longitudinal genomic and clinical data from the AACR project GENIE biopharma collaborative in cBioPortal
I de Bruijn, R Kundra, B Mastrogiacomo, TN Tran, L Sikina, T Mazor, X Li, ...
Cancer research 83 (23), 3861-3867, 2023
SMARCA4 and other SWItch/sucrose nonfermentable family genomic alterations in NSCLC: clinicopathologic characteristics and outcomes to immune checkpoint inhibition
JV Alessi, B Ricciuti, LF Spurr, H Gupta, YY Li, C Glass, M Nishino, ...
Journal of Thoracic Oncology 16 (7), 1176-1187, 2021
A randomized trial of combined PD-L1 and CTLA-4 inhibition with targeted low-dose or hypofractionated radiation for patients with metastatic colorectal cancer
AM Monjazeb, A Giobbie-Hurder, A Lako, EM Thrash, RC Brennick, ...
Clinical Cancer Research 27 (9), 2470-2480, 2021
Low peripheral blood derived neutrophil-to-lymphocyte ratio (dNLR) is associated with increased tumor T-cell infiltration and favorable outcomes to first-line pembrolizumab in …
JV Alessi, B Ricciuti, SL Alden, AA Bertram, JJ Lin, M Sakhi, M Nishino, ...
Journal for Immunotherapy of Cancer 9 (11), 2021
Evolution of coding and non-coding genes in HOX clusters of a marsupial
H Yu, J Lindsay, ZP Feng, S Frankenberg, Y Hu, D Carone, G Shaw, ...
BMC genomics 13, 1-15, 2012
Dissecting the clinicopathologic, genomic, and immunophenotypic correlates of KRASG12D-mutated non-small-cell lung cancer
B Ricciuti, JV Alessi, A Elkrief, X Wang, A Cortellini, YY Li, VR Vaz, ...
Annals of Oncology 33 (10), 1029-1040, 2022
AACR Project GENIE: 100,000 cases and beyond
TJ Pugh, JL Bell, JP Bruce, GJ Doherty, M Galvin, MF Green, ...
Cancer Discovery 12 (9), 2044-2057, 2022
Feature selection and classifier performance on diverse bio-logical datasets
E Hemphill, J Lindsay, C Lee, II Măndoiu, CE Nelson
BMC bioinformatics 15, 1-14, 2014
The cBioPortal for cancer genomics and its application in precision oncology
J Gao, J Lindsay, S Watt, I Bahceci, P Lukasse, A Abeshouse, HW Chen, ...
Cancer Research 76 (14_Supplement), 5277-5277, 2016
Serological response to mRNA COVID-19 vaccines in IBD patients receiving biological therapies
SY Wong, R Dixon, VM Pazos, S Gnjatic, JF Colombel, K Cadwell, S Gold, ...
Gastroenterology 161 (2), 715-718, 2021
MatchMiner: An open source computational platform for real-time matching of cancer patients to precision medicine clinical trials using genomic and clinical criteria
J Lindsay, C Del Vecchio Fitz, Z Zwiesler, P Kumari, B Van Der Veen, ...
BioRxiv, 199489, 2017
Unique small RNA signatures uncovered in the tammar wallaby genome
J Lindsay, DM Carone, J Brown, L Hall, S Qureshi, SE Mitchell, N Jannetty, ...
BMC genomics 13, 1-17, 2012
MatchMiner: an open-source platform for cancer precision medicine
H Klein, T Mazor, E Siegel, P Trukhanov, A Ovalle, CD Vecchio Fitz, ...
NPJ Precision Oncology 6 (1), 69, 2022
Network for biomarker immunoprofiling for cancer immunotherapy: cancer immune monitoring and analysis centers and cancer immunologic data commons (CIMAC-CIDC)
HX Chen, M Song, HT Maecker, S Gnjatic, D Patton, JJ Lee, SJ Adam, ...
Clinical Cancer Research 27 (18), 5038-5048, 2021
Ilp-based maximum likelihood genome scaffolding
J Lindsay, H Salooti, I Măndoiu, A Zelikovsky
BMC bioinformatics 15, 1-12, 2014
Scalable genome scaffolding using integer linear programming
J Lindsay, H Salooti, A Zelikovsky, I Măndoiu
Proceedings of the ACM Conference on Bioinformatics, Computational Biology …, 2012
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