Progress in toxicogenomics to protect human health

MJ Meier, J Harrill, K Johnson, RS Thomas… - Nature Reviews …, 2024 - nature.com
Toxicogenomics measures molecular features, such as transcripts, proteins, metabolites and
epigenomic modifications, to understand and predict the toxicological effects of …

Biological applications of knowledge graph embedding models

SK Mohamed, A Nounu, V Nováček - Briefings in bioinformatics, 2021 - academic.oup.com
Complex biological systems are traditionally modelled as graphs of interconnected
biological entities. These graphs, ie biological knowledge graphs, are then processed using …

The Comparative Toxicogenomics Database's 10th year anniversary: update 2015

AP Davis, CJ Grondin, K Lennon-Hopkins… - Nucleic acids …, 2015 - academic.oup.com
Ten years ago, the Comparative Toxicogenomics Database (CTD; http://ctdbase. org/) was
developed out of a need to formalize, harmonize and centralize the information on …

Changing trends in computational drug repositioning

JK Yella, S Yaddanapudi, Y Wang, AG Jegga - Pharmaceuticals, 2018 - mdpi.com
Efforts to maximize the indications potential and revenue from drugs that are already
marketed are largely motivated by what Sir James Black, a Nobel Prize-winning …

From in silico target prediction to multi-target drug design: current databases, methods and applications

A Koutsoukas, B Simms, J Kirchmair, PJ Bond… - Journal of …, 2011 - Elsevier
Given the tremendous growth of bioactivity databases, the use of computational tools to
predict protein targets of small molecules has been gaining importance in recent years …

Comparative Toxicogenomics Database: a knowledgebase and discovery tool for chemical–gene–disease networks

AP Davis, CG Murphy… - Nucleic acids …, 2009 - academic.oup.com
Abstract The Comparative Toxicogenomics Database (CTD) is a curated database that
promotes understanding about the effects of environmental chemicals on human health …

[HTML][HTML] A pan-cancer analysis of GINS complex subunit 4 to identify its potential role as a biomarker in multiple human cancers

M Usman, MK Okla, HM Asif… - American Journal of …, 2022 - ncbi.nlm.nih.gov
This study was initiated to explore the expression variation, clinical significance, and
biological importance of the GINS complex subunit 4 (GINS4) in different human cancers as …

The chemical landscape of high-throughput new approach methodologies for exposure

KK Isaacs, P Egeghy, KL Dionisio, KA Phillips… - Journal of exposure …, 2022 - nature.com
The rapid characterization of risk to humans and ecosystems from exogenous chemicals
requires information on both hazard and exposure. The US Environmental Protection …

Biokg: A knowledge graph for relational learning on biological data

B Walsh, SK Mohamed, V Nováček - Proceedings of the 29th ACM …, 2020 - dl.acm.org
Knowledge graphs became a popular means for modeling complex biological systems
where they model the interactions between biological entities and their effects on the …

Chem2Bio2RDF: a semantic framework for linking and data mining chemogenomic and systems chemical biology data

B Chen, X Dong, D Jiao, H Wang, Q Zhu, Y Ding… - BMC …, 2010 - Springer
Background Recently there has been an explosion of new data sources about genes,
proteins, genetic variations, chemical compounds, diseases and drugs. Integration of these …