The paper identifies genomic alterations in the YAP/TAZ pathway associated with stem cell-like castration-resistant prostate cancer using transcriptomic and whole-genome sequencing data.

medRxiv · Jul 1, 2025 · PreprintGenetic & Genomic Medicine

Single Cell Analysis of Treatment-Resistant Prostate Cancer: Implications of Cell State Changes for Cell Surface Antigen Targeted Therapies

Samir Zaidi, Jooyoung Park, Joseph Minhow Chan, Martine P. Roudier, Jimmy L. Zhao, Anuradha Gopalan, Kristine M. Wadosky, Radhika A. Patel, Erolcan Sayar, Wouter R. Karthaus, D. Henry Kates, Ojasvi Chaudhary, Tianhao Xu, Ignas Masilionis, Linas Mažutis, , Charles L. Sawyers

The paper uses single-cell analysis to study how cell surface antigen expression changes in treatment-resistant prostate cancer, revealing transcriptional heterogeneity and shared gene regulatory networks between NEPC and SCLC.

Proceedings of the National Academy of Sciences · Jul 5, 2024Peer-reviewedCancer Biology

Oncologic Therapy Shapes the Fitness Landscape of ClonalHematopoiesis

Kelly L. Bolton, Ryan N. Ptashkin, Teng Gao, Lior Zvi Braunstein, Sean M. Devlin, Daniel John Kelly, Minal A. Patel, Antonin Berthon, Aijazuddin Syed, Mariko Yabe, Catherine Callaghan Coombs, Nicole M. Caltabellotta, Mike Walsh, Kenneth Offit, Zsofia Kinga Stadler, , Elli Papaemmanuil

The paper shows oncologic therapy increases clonal hematopoiesis with DDR mutations, which predicts risk of therapy-related myeloid neoplasms.

bioRxiv · Nov 20, 2019 · PreprintGenetics

Spectroscopy and Machine Learning Based Rapid Point-of-Care Assessment of Core Needle Cancer Biopsies

Krishna Nand Keshava Murthy, Dmitry V. Dylov, Siavash Yazdanfar, Dharam Patel, Tarik Silk, Mikhail T. Silk, Frederick Jacques, Elena Nadia Petre, Mithat Gönen, Natasha Rekhtman, Victor Ostroverkhov, Howard I. Scher, Stephen Barnett Solomon, Jeremy C. Durack

This paper uses optical spectroscopy and machine learning to rapidly identify malignant tissue in cancer biopsies, achieving high sensitivity and specificity.

bioRxiv · Aug 24, 2019 · PreprintBioinformatics