Hamim Zafar

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• SiCloneFit: Bayesian inference of population structure, genotype, and phylogeny of tumor clones from single-cell genome sequencing data

Hamim Zafar, Nicholas Navin, Ken Chen, Luay Nakhleh

Genome Research 29(11), 1847-1859.

PMID: 31628257 | gr.243121.118v1

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• Matrilysin/MMP-7 Cleavage of Perlecan/HSPG2 Complexed with Semaphorin 3A Supports FAK-Mediated Stromal Invasion by Prostate Cancer Cells

Brian J Grindel, Jerahme R Martinez, Tristen V Tellman, Daniel A Harrington, Hamim Zafar, Luay Nakhleh, Leland W Chung, Mary C Farach-Carson

Scientific reports 8 (1), 7262

PMID: 2974004 | doi:10.1038/s41598-018-25435-3

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• Computational approaches for inferring tumor evolution from single-cell genomic data

Hamim Zafar, Nicholas Navin, Luay Nakhleh, Ken Chen

Current Opinion in Systems Biology 7, 16-25

doi:10.1016/j.coisb.2017.11.008

 

• SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models

Hamim Zafar, Anthony Tzen, Nicholas Navin, Ken Chen, Luay Nakhleh

Genome Biology 18 (1), 178

PMID: 28927434 | doi:10.1186/s13059-017-1311-2

(Also read the correspondence to SiFit)

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• Monovar: single-nucleotide variant detection in single cells

Hamim Zafar, Yong Wang, Luay Nakhleh, Nicholas Navin, Ken Chen

Nature Methods 13 (6), 505-507

PMID: 27088313 | doi:10.1038/nmeth.3835