A deep learning framework for high-throughput mechanism-driven phenotype compound screening and its application to COVID-19 drug repurposing

TH Pham, Y Qiu, J Zeng, L Xie, P Zhang - Nature machine intelligence, 2021 - nature.com
Phenotype-based compound screening has advantages over target-based drug discovery,
but is unscalable and lacks understanding of mechanism of drug action. A chemical-induced …

MNK, mTOR or eIF4E-selecting the best anti-tumor target for blocking translation initiation

S Li, J Chen, X Li, D Shi - European Journal of Medicinal Chemistry, 2023 - Elsevier
Overexpression of eIF4E is common in patients with various solid tumors and hematologic
cancers. As a potential anti-cancer target, eIF4E has attracted extensive attention from …

Targeting translation of mRNA as a therapeutic strategy in cancer

I Pal, M Safari, M Jovanovic, SE Bates… - Current Hematologic …, 2019 - Springer
Abstract Purpose of Review To highlight recent results in targeting mRNA translation and
discuss the results and prospects of translation inhibitors in cancer therapy. Recent Findings …

Subtype-specific collaborative transcription factor networks are promoted by OCT4 in the progression of prostate cancer

K Takayama, T Kosaka, T Suzuki, H Hongo… - Nature …, 2021 - nature.com
Interactive networks of transcription factors (TFs) have critical roles in epigenetic and gene
regulation for cancer progression. It is required to clarify underlying mechanisms for …

Elucidating the modes of action for bioactive compounds in a cell-specific manner by large-scale chemically-induced transcriptomics

M Iwata, R Sawada, H Iwata, M Kotera, Y Yamanishi - Scientific reports, 2017 - nature.com
The identification of the modes of action of bioactive compounds is a major challenge in
chemical systems biology of diseases. Genome-wide expression profiling of transcriptional …

De novo drug design based on patient gene expression profiles via deep learning

C Yamanaka, S Uki, K Kaitoh, M Iwata… - Molecular …, 2023 - Wiley Online Library
Computational de novo drug design is a challenging issue in medicine, and it is desirable to
consider all of the relevant information of the biological systems in a disease state. Here, we …

[HTML][HTML] Chemical-induced gene expression ranking and its application to pancreatic cancer drug repurposing

TH Pham, Y Qiu, J Liu, S Zimmer, E O'Neill, L Xie… - Patterns, 2022 - cell.com
Chemical-induced gene expression profiles provide critical information of chemicals in a
biological system, thus offering new opportunities for drug discovery. Despite their success …

Predicting drug-induced transcriptome responses of a wide range of human cell lines by a novel tensor-train decomposition algorithm

M Iwata, L Yuan, Q Zhao, Y Tabei, F Berenger… - …, 2019 - academic.oup.com
Motivation Genome-wide identification of the transcriptomic responses of human cell lines to
drug treatments is a challenging issue in medical and pharmaceutical research. However …

Discovery of a new candidate drug to overcome cabazitaxel-resistant gene signature in castration-resistant prostate cancer by in silico screening

H Hongo, T Kosaka, Y Suzuki, M Oya - Prostate cancer and prostatic …, 2023 - nature.com
Background The taxane cabazitaxel (CBZ) is a promising treatment for docetaxel-resistant
castration-resistant prostate cancer (CRPC). However, the survival benefit with CBZ for …

[HTML][HTML] Ribavirin as a tri-targeted antitumor repositioned drug

D la Cruz-Hernandez… - Oncology …, 2015 - spandidos-publications.com
The aim of the present study was to demonstrate that ribavirin, a known inhibitor of eIF4E
and inosine 5'-phosphate dehydrogenase (IMPDH), also inhibits histone methyltransferase …