[PDF][PDF] N-Myc induces an EZH2-mediated transcriptional program driving neuroendocrine prostate cancer

E Dardenne, H Beltran, M Benelli, K Gayvert, A Berger… - Cancer cell, 2016 - cell.com
The transition from castration-resistant prostate adenocarcinoma (CRPC) to neuroendocrine
prostate cancer (NEPC) has emerged as an important mechanism of treatment resistance. …

[PDF][PDF] A data-driven approach to predicting successes and failures of clinical trials

KM Gayvert, NS Madhukar, O Elemento - Cell chemical biology, 2016 - cell.com
Over the past decade, the rate of drug attrition due to clinical trial failures has risen substantially.
Unfortunately it is difficult to identify compounds that have unfavorable toxicity properties …

[HTML][HTML] A Bayesian machine learning approach for drug target identification using diverse data types

NS Madhukar, PK Khade, L Huang, K Gayvert… - Nature …, 2019 - nature.com
Drug target identification is a crucial step in development, yet is also among the most
complex. To address this, we develop BANDIT, a Bayesian machine-learning approach that …

[PDF][PDF] Broad targeting specificity during bacterial type III CRISPR-Cas immunity constrains viral escape

NC Pyenson, K Gayvert, A Varble, O Elemento… - Cell host & …, 2017 - cell.com
CRISPR loci are a cluster of repeats separated by short "spacer" sequences derived from
prokaryotic viruses and plasmids that determine the targets of the host's CRISPR-Cas immune …

[HTML][HTML] A computational approach for identifying synergistic drug combinations

KM Gayvert, O Aly, J Platt, MW Bosenberg… - PLoS computational …, 2017 - journals.plos.org
A promising alternative to address the problem of acquired drug resistance is to rely on
combination therapies. Identification of the right combinations is often accomplished through trial …

Blocking common γ chain cytokine signaling ameliorates T cell–mediated pathogenesis in disease models

…, G Scott, LH Ben, D Ajithdoss, K Gayvert… - Science Translational …, 2023 - science.org
The common γ chain (γc; IL-2RG) is a subunit of the interleukin (IL) receptors for the γc
cytokines IL-2, IL-4, IL-7, IL-9, IL-15, and IL-21. The lack of appropriate neutralizing antibodies …

[PDF][PDF] A computational drug repositioning approach for targeting oncogenic transcription factors

KM Gayvert, E Dardenne, C Cheung, MR Boland… - Cell reports, 2016 - cell.com
Gayvert et al. present a broadly applicable systems biology method for identifying small
molecules and drugs that modulate transcription factor activity. They identified dexamethasone …

[HTML][HTML] ENCAPP: elastic-net-based prognosis prediction and biomarker discovery for human cancers

J Das, KM Gayvert, F Bunea, MH Wegkamp, H Yu - BMC genomics, 2015 - Springer
k years, where k varies from 3 to 14. We find that ENCAPP performs consistently well for all
values of k (… if she does not have metastases for > = k years, where k varies from 3 to 10. Here …

[HTML][HTML] Evolutionary trajectory of SARS-CoV-2 genome shifts during widespread vaccination and emergence of Omicron variant

K Gayvert, S McKay, WK Lim, A Baum, C Kyratsous… - npj Viruses, 2023 - nature.com
Understanding the adaptation of SARS-CoV-2 is critical for the development of effective
treatments against this exceptionally successful human pathogen. To predict the emergence of …

Predicting cancer prognosis using functional genomics data sets

J Das, KM Gayvert, H Yu - Cancer informatics, 2014 - journals.sagepub.com
Elucidating the molecular basis of human cancers is an extremely complex and challenging
task. A wide variety of computational tools and experimental techniques have been used to …