The paper introduces wellDA-seq, a method to co-profile genome and epigenome in single cells, revealing genetic hardwiring and epigenetic plasticity in breast cancer.

bioRxiv · Sep 6, 2024 · PreprintGenomics

Resolving clonal substructure from single cell genomic data using CopyKit

Darlan Conterno Minussi, Emi Sei, Junke Wang, Aislyn P. Schalck, Yun Yan, Alexander Davis, Hua‐Jun Wu, Shanshan Bai, Cheng Peng, Min Hu, Tod D. Casasent, Alejandro Contreras, Hui Chen, David Hui, Senthil Damodaran, , Nicholas E. Navin

CopyKit is a computational tool that resolves clonal substructure and reconstructs genetic lineages in tumors using single cell copy number data.

bioRxiv · Mar 9, 2022 · PreprintGenomics

Genome-wide association study identifies susceptibility loci for acute myeloid leukemia

Wei‐Yu Lin, Sarah Elizabeth Fordham, Eric A. Hungate, Nicola J. Sunter, Claire J. Elstob, Yaobo Xu, Catherine Park, Anne S. Quante, Konstantin Strauch, Christian Gieger, Andrew D. Skol, Thahira Rahman, Lara E. Sucheston‐Campbell, Junke Wang, Theresa Hahn, , James M. Allan

This study identifies two genome-wide significant susceptibility loci for acute myeloid leukemia through a meta-analysis of GWAS data.

Nature Communications · Oct 29, 2021Peer-reviewedGenetic & Genomic Medicine

Association of CXCR6 with COVID-19 severity: Delineating the host genetic factors in transcriptomic regulation

Yulin Dai, Junke Wang, Hyun-Hwan Jeong, Wenhao Chen, Peilin Jia, Zhongming Zhao

The paper identifies CXCR6 as a host genetic factor associated with severe COVID-19 through transcriptomic analysis and shows its protective effect in lung tissue.

Human Genetics · Jun 21, 2021Peer-reviewedGenetics

Genome-wide association analyses identify variants in IRF4 associated with acute myeloid leukemia and myelodysplastic syndrome susceptibility

Junke Wang, Alyssa Clay‐Gilmour, Ezgi Karaesmen, Abbas Rizvi, Qianqian Zhu, Li Yan, Leah M. Preus, Song Liu, Yiwen Wang, Elizabeth A. Griffiths, Daniel O. Stram, Loreall Pooler, Xin Sheng, Christopher A. Haiman, David Van Den Berg, , Lara E. Sucheston‐Campbell

This study identifies IRF4 variants associated with increased risk of de novo AML and MDS through GWAS and TWAS analyses using the DISCOVeRY-BMT cohorts.

Frontiers in Genetics · Jun 17, 2021Peer-reviewedGenomics

gwasurvivr: an R package for genome wide survival analysis

Abbas Rizvi, Ezgi Karaesmen, Martin T. Morgan, Leah M. Preus, Junke Wang, Michael G. Sovic, Theresa Hahn, Lara E. Sucheston‐Campbell

gwasurvivr is an R package for genome-wide survival analysis that is faster and more scalable than existing tools.

Bioinformatics · Nov 1, 2018Peer-reviewedGenomics