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Andrew McPherson
Andrew McPherson
Verified email at mskcc.org - Homepage
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Year
A survey of best practices for RNA-seq data analysis
A Conesa, P Madrigal, S Tarazona, D Gomez-Cabrero, A Cervera, ...
Genome biology 17, 1-19, 2016
29772016
The clonal and mutational evolution spectrum of primary triple-negative breast cancers
SP Shah, A Roth, R Goya, A Oloumi, G Ha, Y Zhao, G Turashvili, J Ding, ...
Nature 486 (7403), 395-399, 2012
22562012
ARID1A Mutations in Endometriosis-Associated Ovarian Carcinomas
KC Wiegand, SP Shah, OM Al-Agha, Y Zhao, K Tse, T Zeng, J Senz, ...
New England Journal of Medicine 363 (16), 1532-1543, 2010
18792010
MHC class II transactivator CIITA is a recurrent gene fusion partner in lymphoid cancers
C Steidl, SP Shah, BW Woolcock, L Rui, M Kawahara, P Farinha, ...
Nature 471 (7338), 377-381, 2011
6882011
Dynamics of genomic clones in breast cancer patient xenografts at single-cell resolution
P Eirew, A Steif, J Khattra, G Ha, D Yap, H Farahani, K Gelmon, S Chia, ...
Nature 518 (7539), 422-426, 2015
6502015
deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data
A McPherson, F Hormozdiari, A Zayed, R Giuliany, G Ha, MGF Sun, ...
PLoS computational biology 7 (5), e1001138, 2011
6162011
Spatial genomic heterogeneity within localized, multifocal prostate cancer
PC Boutros, M Fraser, NJ Harding, R De Borja, D Trudel, E Lalonde, ...
Nature genetics 47 (7), 736-745, 2015
5172015
TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data
G Ha, A Roth, J Khattra, J Ho, D Yap, LM Prentice, N Melnyk, ...
Genome research 24 (11), 1881-1893, 2014
3892014
Divergent modes of clonal spread and intraperitoneal mixing in high-grade serous ovarian cancer
A McPherson, A Roth, E Laks, T Masud, A Bashashati, AW Zhang, G Ha, ...
Nature genetics 48 (7), 758-767, 2016
3372016
Genomic rearrangements involving programmed death ligands are recurrent in primary mediastinal large B-cell lymphoma
DDW Twa, FC Chan, S Ben-Neriah, BW Woolcock, A Mottok, KL Tan, ...
Blood, The Journal of the American Society of Hematology 123 (13), 2062-2065, 2014
3192014
Genomic rearrangements involving programmed death ligands are recurrent in primary mediastinal large B-cell lymphoma
DDW Twa, FC Chan, S Ben-Neriah, BW Woolcock, A Mottok, KL Tan, ...
Blood, The Journal of the American Society of Hematology 123 (13), 2062-2065, 2014
3162014
Interfaces of malignant and immunologic clonal dynamics in ovarian cancer
AW Zhang, A McPherson, K Milne, DR Kroeger, PT Hamilton, A Miranda, ...
Cell 173 (7), 1755-1769. e22, 2018
2962018
Probabilistic cell-type assignment of single-cell RNA-seq for tumor microenvironment profiling
AW Zhang, C O’Flanagan, EA Chavez, JLP Lim, N Ceglia, A McPherson, ...
Nature methods 16 (10), 1007-1015, 2019
2662019
Genomic consequences of aberrant DNA repair mechanisms stratify ovarian cancer histotypes
YK Wang, A Bashashati, MS Anglesio, DR Cochrane, DS Grewal, G Ha, ...
Nature genetics 49 (6), 856-865, 2017
2502017
14-3-3 fusion oncogenes in high-grade endometrial stromal sarcoma
CH Lee, WB Ou, A Mariņo-Enriquez, M Zhu, M Mayeda, Y Wang, X Guo, ...
Proceedings of the National Academy of Sciences 109 (3), 929-934, 2012
2502012
Histological transformation and progression in follicular lymphoma: a clonal evolution study
R Kridel, FC Chan, A Mottok, M Boyle, P Farinha, K Tan, B Meissner, ...
PLoS medicine 13 (12), e1002197, 2016
2272016
From sequence to molecular pathology, and a mechanism driving the neuroendocrine phenotype in prostate cancer
AV Lapuk, C Wu, AW Wyatt, A McPherson, BJ McConeghy, S Brahmbhatt, ...
The Journal of pathology 227 (3), 286-297, 2012
2112012
Dissociation of solid tumor tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses
CH O’Flanagan, KR Campbell, AW Zhang, F Kabeer, JLP Lim, J Biele, ...
Genome biology 20, 1-13, 2019
2052019
Clonality inference in multiple tumor samples using phylogeny
S Malikic, AW McPherson, N Donmez, CS Sahinalp
Bioinformatics 31 (9), 1349-1356, 2015
1992015
Clonal decomposition and DNA replication states defined by scaled single-cell genome sequencing
E Laks, A McPherson, H Zahn, D Lai, A Steif, J Brimhall, J Biele, B Wang, ...
Cell 179 (5), 1207-1221. e22, 2019
1752019
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