SV-HotSpot: detection and visualization of hotspots targeted by structural variants associated with gene expression

by Abdallah M. Eteleeb, David A. Quigley, Shuang G. Zhao, Duy Pham, Rendong Yang, Scott M. Dehm, Jingqin Luo, Felix Y. Feng, Ha X. Dang, Christopher A. Maher
Published 2020

An integrated functional and clinical genomics approach reveals genes driving aggressive metastatic prostate cancer

by Rajdeep Das, Martin Sjöström, Raunak Shrestha, Christopher Yogodzinski, Emily A. Egusa, Lisa N. Chesner, William S. Chen, Jonathan Chou, Donna K. Dang, Jason T. Swinderman, Alex Ge, Junjie T. Hua, Shaheen Kabir, David A. Quigley, Eric J. Small, Alan Ashworth, Felix Y. Feng, Luke A. Gilbert
Published 2021

Predicting cancer drug TARGETS - TreAtment Response Generalized Elastic-neT Signatures

by Nicholas R. Rydzewski, Erik Peterson, Joshua M. Lang, Menggang Yu, S. Laura Chang, Martin Sjöström, Hamza Bakhtiar, Gefei Song, Kyle T. Helzer, Matthew L. Bootsma, William S. Chen, Raunak M. Shrestha, Meng Zhang, David A. Quigley, Rahul Aggarwal, Eric J. Small, Daniel R. Wahl, Felix Y. Feng, Shuang G. Zhao
Published 2021

Circadian PERformance in breast cancer: a germline and somatic genetic study of PER3 VNTR polymorphisms and gene co-expression

by Jaume Fores-Martos, Raimundo Cervera-Vidal, Julia Sierra-Roca, Carlos Lozano-Asencio, Vita Fedele, Sten Cornelissen, Hege Edvarsen, Irene Tadeo-Cervera, Pilar Eroles, Ana Lluch, Rafa Tabares-Seisdedos, Antonio Falcó, Laura J. Van’t Veer, Marjanka Schmidt, David A. Quigley, Anne-Lise Børresen-Dale, Vessela N. Kristensen, Allan Balmain, Joan Climent
Published 2021

CRISPRi screens reveal a DNA methylation-mediated 3D genome dependent causal mechanism in prostate cancer

by Musaddeque Ahmed, Fraser Soares, Ji-Han Xia, Yue Yang, Jing Li, Haiyang Guo, Peiran Su, Yijun Tian, Hyung Joo Lee, Miranda Wang, Nayeema Akhtar, Kathleen E. Houlahan, Almudena Bosch, Stanley Zhou, Parisa Mazrooei, Junjie T. Hua, Sujun Chen, Jessica Petricca, Yong Zeng, Alastair Davies, Michael Fraser, David A. Quigley, Felix Y. Feng, Paul C. Boutros, Mathieu Lupien, Amina Zoubeidi, Liang Wang, Martin J. Walsh, Ting Wang, Shancheng Ren, Gong-Hong Wei, Housheng Hansen He
Published 2021