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Allen Zhang
Allen Zhang
Verified email at student.ubc.ca
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JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles
A Mathelier, X Zhao, AW Zhang, F Parcy, R Worsley-Hunt, DJ Arenillas, ...
Nucleic acids research 42 (D1), D142-D147, 2014
11852014
JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles
A Mathelier, O Fornes, DJ Arenillas, C Chen, G Denay, J Lee, W Shi, ...
Nucleic acids research 44 (D1), D110-D115, 2016
11342016
Cancer stemness, intratumoral heterogeneity, and immune response across cancers
A Miranda, PT Hamilton, AW Zhang, S Pattnaik, E Becht, A Mezheyeuski, ...
Proceedings of the National Academy of Sciences 116 (18), 9020-9029, 2019
4422019
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
3632016
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
3292018
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
3102019
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
2692017
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
2342019
Single-cell transcriptome analysis reveals disease-defining T-cell subsets in the tumor microenvironment of classic Hodgkin lymphoma
T Aoki, LC Chong, K Takata, K Milne, M Hav, A Colombo, EA Chavez, ...
Cancer discovery 10 (3), 406-421, 2020
2002020
Ovarian cancer mutational processes drive site-specific immune evasion
I Vázquez-García, F Uhlitz, N Ceglia, JLP Lim, M Wu, N Mohibullah, ...
Nature 612 (7941), 778-786, 2022
1322022
Clonal fitness inferred from time-series modelling of single-cell cancer genomes
S Salehi, F Kabeer, N Ceglia, M Andronescu, MJ Williams, KR Campbell, ...
Nature 595 (7868), 585-590, 2021
1072021
Integrated structural variation and point mutation signatures in cancer genomes using correlated topic models
T Funnell, AW Zhang, D Grewal, S McKinney, A Bashashati, YK Wang, ...
PLoS computational biology 15 (2), e1006799, 2019
77*2019
TMEM30A loss-of-function mutations drive lymphomagenesis and confer therapeutically exploitable vulnerability in B-cell lymphoma
D Ennishi, S Healy, A Bashashati, S Saberi, C Hother, A Mottok, FC Chan, ...
Nature medicine 26 (4), 577-588, 2020
732020
Single-cell genomic variation induced by mutational processes in cancer
T Funnell, CH O’Flanagan, MJ Williams, A McPherson, S McKinney, ...
Nature 612 (7938), 106-115, 2022
712022
The Effect of Neutropenia and Filgrastim (G-CSF) in Cancer Patients With COVID-19 Infection
AW Zhang, S Morjaria, A Kaltsas, TM Hohl, R Parameswaran, D Patel, ...
Clinical Infectious Diseases, ciab534, 2021
62*2021
Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas
A Mathelier, C Lefebvre, AW Zhang, DJ Arenillas, J Ding, WW Wasserman, ...
Genome biology 16, 1-17, 2015
502015
Deep learning-based histotype diagnosis of ovarian carcinoma whole-slide pathology images
H Farahani, J Boschman, D Farnell, A Darbandsari, A Zhang, ...
Modern Pathology 35 (12), 1983-1990, 2022
442022
Tumor-associated antigen PRAME exhibits dualistic functions that are targetable in diffuse large B cell lymphoma
K Takata, LC Chong, D Ennishi, T Aoki, MY Li, A Thakur, S Healy, ...
The Journal of Clinical Investigation 132 (10), 2022
222022
Rethinking the need for a platelet transfusion threshold of 50 × 109/L for lumbar puncture in cancer patients
HH Chung, S Morjaria, J Frame, M Riley, AW Zhang, SC Martin, A Bhatia, ...
Transfusion 60 (10), 2243-2249, 2020
142020
Projecting COVID-19 disease severity in cancer patients using purposefully-designed machine learning
S Navlakha, S Morjaria, R Perez-Johnston, A Zhang, Y Taur
BMC infectious diseases 21 (1), 391, 2021
112021
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