A SARS-CoV-2 protein interaction map reveals targets for drug repurposing

DE Gordon, GM Jang, M Bouhaddou, J Xu, K Obernier… - Nature, 2020 - nature.com
A newly described coronavirus named severe acute respiratory syndrome coronavirus 2
(SARS-CoV-2), which is the causative agent of coronavirus disease 2019 (COVID-19), has …

Ligand binding remodels protein side-chain conformational heterogeneity

SA Wankowicz, SH de Oliveira, DW Hogan… - Elife, 2022 - elifesciences.org
While protein conformational heterogeneity plays an important role in many aspects of
biological function, including ligand binding, its impact has been difficult to quantify …

Structural alterations driving castration-resistant prostate cancer revealed by linked-read genome sequencing

SR Viswanathan, G Ha, AM Hoff, JA Wala… - Cell, 2018 - cell.com
Nearly all prostate cancer deaths are from metastatic castration-resistant prostate cancer
(mCRPC), but there have been few whole-genome sequencing (WGS) studies of this …

Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge

CL Lawson, A Kryshtafovych, PD Adams, PV Afonine… - Nature …, 2021 - nature.com
This paper describes outcomes of the 2019 Cryo-EM Model Challenge. The goals were to
(1) assess the quality of models that can be produced from cryogenic electron microscopy …

Genomic predictors of good outcome, recurrence, or progression in high-grade t1 non–muscle-invasive bladder cancer

J Bellmunt, J Kim, B Reardon, J Perera-Bel, A Orsola… - Cancer research, 2020 - AACR
Abstract High-grade T1 (HGT1) bladder cancer is the highest risk subtype of non–muscle-
invasive bladder cancer with unpredictable outcome and poorly understood risk factors …

Integrative molecular characterization of resistance to neoadjuvant chemoradiation in rectal cancer

SC Kamran, JK Lennerz, CA Margolis, D Liu… - Clinical Cancer …, 2019 - AACR
Purpose: Molecular properties associated with complete response or acquired resistance to
concurrent chemotherapy and radiotherapy (CRT) are incompletely characterized …

Molecular features of exceptional response to neoadjuvant anti-androgen therapy in high-risk localized prostate cancer

AK Tewari, ATM Cheung, J Crowdis, JR Conway… - Cell Reports, 2021 - cell.com
High-risk localized prostate cancer (HRLPC) is associated with a substantial risk of
recurrence and disease mortality. Recent clinical trials have shown that intensifying anti …

qFit 3: Protein and ligand multiconformer modeling for X‐ray crystallographic and single‐particle cryo‐EM density maps

BT Riley, SA Wankowicz, SHP de Oliveira… - Protein …, 2021 - Wiley Online Library
New X‐ray crystallography and cryo‐electron microscopy (cryo‐EM) approaches yield vast
amounts of structural data from dynamic proteins and their complexes. Modeling the full …

[HTML][HTML] Uncovering protein ensembles: automated multiconformer model building for X-ray crystallography and cryo-EM

SA Wankowicz, A Ravikumar, S Sharma, BT Riley… - bioRxiv, 2023 - ncbi.nlm.nih.gov
In their folded state, biomolecules exchange between multiple conformational states that are
crucial for their function. Traditional structural biology methods, such as X-ray …

Racial disparity in quality of care and overall survival among black vs. white patients with muscle-invasive bladder cancer treated with radical cystectomy: A national …

P Gild, SA Wankowicz, A Sood… - … Oncology: Seminars and …, 2018 - Elsevier
Objectives To examine the impact of race on quality of care and overall survival (OS) among
patients with muscle invasive bladder cancer (MIBC) treated with radical cystectomy (RC) in …