Artificial intelligence, machine learning, and drug repurposing in cancer

Z Tanoli, M Vähä-Koskela… - Expert opinion on drug …, 2021 - Taylor & Francis
Introduction: Drug repurposing provides a cost-effective strategy to re-use approved drugs
for new medical indications. Several machine learning (ML) and artificial intelligence (AI) …

A review of biomedical datasets relating to drug discovery: a knowledge graph perspective

S Bonner, IP Barrett, C Ye, R Swiers… - Briefings in …, 2022 - academic.oup.com
Drug discovery and development is a complex and costly process. Machine learning
approaches are being investigated to help improve the effectiveness and speed of multiple …

WikiPathways: connecting communities

M Martens, A Ammar, A Riutta… - Nucleic acids …, 2021 - academic.oup.com
Abstract WikiPathways (https://www. wikipathways. org) is a biological pathway database
known for its collaborative nature and open science approaches. With the core idea of the …

Pathway analysis in metabolomics: Recommendations for the use of over-representation analysis

C Wieder, C Frainay, N Poupin… - PLoS computational …, 2021 - journals.plos.org
Over-representation analysis (ORA) is one of the commonest pathway analysis approaches
used for the functional interpretation of metabolomics datasets. Despite the widespread use …

Metabolomics and multi-omics integration: a survey of computational methods and resources

T Eicher, G Kinnebrew, A Patt, K Spencer, K Ying, Q Ma… - Metabolites, 2020 - mdpi.com
As researchers are increasingly able to collect data on a large scale from multiple clinical
and omics modalities, multi-omics integration is becoming a critical component of …

ConsensusPathDB 2022: molecular interactions update as a resource for network biology

A Kamburov, R Herwig - Nucleic acids research, 2022 - academic.oup.com
Molecular interactions are key drivers of biological function. Providing interaction resources
to the research community is important since they allow functional interpretation and network …

[HTML][HTML] Systems Biology and Bioinformatics approach to Identify blood based signatures molecules and drug targets of patient with COVID-19

MI Hasan, MH Rahman, MB Islam, MZ Islam… - Informatics in Medicine …, 2022 - Elsevier
Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) infection results in the
development of a highly contagious respiratory ailment known as new coronavirus disease …

A reversible state of hypometabolism in a human cellular model of sporadic Parkinson's disease

S Schmidt, C Stautner, DT Vu, A Heinz… - Nature …, 2023 - nature.com
Abstract Sporadic Parkinson's Disease (sPD) is a progressive neurodegenerative disorder
caused by multiple genetic and environmental factors. Mitochondrial dysfunction is one …

Pathway size matters: the influence of pathway granularity on over-representation (enrichment analysis) statistics

PD Karp, PE Midford, R Caspi, A Khodursky - BMC genomics, 2021 - Springer
Background Enrichment or over-representation analysis is a common method used in
bioinformatics studies of transcriptomics, metabolomics, and microbiome datasets. The key …

Primary cilia and SHH signaling impairments in human and mouse models of Parkinson's disease

S Schmidt, MD Luecken, D Trümbach… - Nature …, 2022 - nature.com
Parkinson's disease (PD) as a progressive neurodegenerative disorder arises from multiple
genetic and environmental factors. However, underlying pathological mechanisms remain …