Allen Zhang
Allen Zhang
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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
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
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, 2016
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
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
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
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
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), 84, 2015
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), 1-13, 2019
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
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
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
Probabilistic cell type assignment of single-cell transcriptomic data reveals spatiotemporal microenvironment dynamics in human cancers
AW Zhang, C O'Flanagan, E Chavez, JLP Lim, A McPherson, M Wiens, ...
bioRxiv, 521914, 2019
Integrated single-nucleotide and structural variation signatures of DNA-repair deficient human cancers
T Funnell, A Zhang, YJ Shiah, D Grewal, R Lesurf, S McKinney, ...
bioRxiv, 267500, 2018
CuboCube: Student creation of a cancer genetics e-textbook using open-access software for social learning
P Seid-Karbasi, XC Ye, AW Zhang, N Gladish, SYS Cheng, K Rothe, ...
PLoS biology 15 (3), e2001192, 2017
The effect of neutropenia and filgrastim (G-CSF) in cancer patients with COVID-19 infection
S Morjaria, A Zhang, A Kaltsas, R Parameswaran, D Patel, W Zhou, ...
medRxiv, 2020
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
Monocyte reconstitution and gut microbiota composition after hematopoietic stem cell transplantation
S Morjaria, AW Zhang, S Kim, JU Peled, S Becattini, ER Littmann, ...
bioRxiv, 777268, 2019
Computational analysis of transcriptional regulation sites at the HTT gene locus
RAG De Souza, N Kosior, SB Thomson, A Mathelier, AW Zhang, ...
Journal of Huntington's Disease 7 (3), 223-237, 2018
The interface of malignant and immunologic clonal dynamics in high-grade serous ovarian cancer
AW Zhang, A McPherson, K Milne, DR Kroeger, PT Hamilton, A Miranda, ...
bioRxiv, 198101, 2017
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