James Lindsay
James Lindsay
Associate Director of Knowledge Systems Group, Dana-Farber Cancer Institute
Verified email at dfci.harvard.edu - Homepage
Title
Cited by
Cited by
Year
AACR Project GENIE: powering precision medicine through an international consortium
AACR Project Genie Consortium
Cancer discovery 7 (8), 818-831, 2017
3812017
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 (8), 1-26, 2011
1712011
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), 1-15, 2012
372012
Feature selection and classifier performance on diverse bio-logical datasets
E Hemphill, J Lindsay, C Lee, II Măndoiu, CE Nelson
BMC bioinformatics 15 (13), 1-14, 2014
272014
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), 1-17, 2012
132012
Ilp-based maximum likelihood genome scaffolding
J Lindsay, H Salooti, I Măndoiu, A Zelikovsky
BMC bioinformatics 15 (9), 1-12, 2014
102014
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, CDV Fitz, Z Zwiesler, P Kumari, B Van Der Veen, T Monrose, ...
bioRxiv, 199489, 2017
92017
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
92016
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
92012
AACR Project GENIE: powering precision medicine through an international consortium
F Andre, M Arnedos, AS Baras, J Baselga, PL Bedard, MF Berger, ...
Cancer Discovery 7 (8), 818-831, 2017
72017
Scaffolding algorithms
I Mandric, J Lindsay, II Măndoiu, A Zelikovsky
Computational Methods for Next Generation Sequencing Data Analysis, 107-132, 2016
62016
The cbioportal for cancer genomics: An intuitive open-source platform for exploration, analysis and visualization of cancer genomics data
J Gao, T Mazor, E Ciftci, P Raman, P Lukasse, I Bahceci, A Sigaras, ...
Cancer Research 78 (13 Supplement), 923-923, 2018
42018
Enhancing genome assemblies by integrating non-sequence based data
TN Heider, J Lindsay, C Wang, RJ O’Neill, AJ Pask
BMC proceedings 5 (2), 1-7, 2011
42011
Silp3: Maximum likelihood approach to scaffolding
I Mandric, J Lindsay, I Măndoiu, A Zelikovsky
2014 IEEE 4th International Conference on Computational Advances in Bio and …, 2014
32014
Deterministic regression algorithm for transcriptome frequency estimation
A Caciula, O Glebova, A Artyomenko, S Mangul, J Lindsay, II Măndoiu, ...
2014 IEEE 4th International Conference on Computational Advances in Bio and …, 2014
22014
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, 2021
12021
Simulated Regression Algorithm for Transcriptome Quantification
A Caciula, O Glebova, A Artyomenko, S Mangul, J Lindsay, II Mandoiu, ...
Bioinformatics Research and Applications: 10th International Symposium …, 2014
12014
Monte-Carlo Regression algorithm for isoform frequency estimation from RNA-Seq data
A Caciula, A Zelikovsky, S Mangul, J Lindsay, I Mandoiu
2013 IEEE 3rd International Conference on Computational Advances in Bio and …, 2013
12013
Poster: Scaffolding draft genomes using paired sequencing data
J Lindsay, J Zhang, T Farnham, Y Wu, I Mandoiu, R O'Neill, H Salooti, ...
2011 IEEE 1st International Conference on Computational Advances in Bio and …, 2011
12011
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
2021
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