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 …

Leveraging multilayered “omics” data for atopic dermatitis: a road map to precision medicine

D Ghosh, JA Bernstein, GK Khurana Hershey… - Frontiers in …, 2018 - frontiersin.org
Atopic dermatitis (AD) is a complex multifactorial inflammatory skin disease that affects~ 280
million people worldwide. About 85% of AD cases begin in childhood, a significant portion of …

Metagenomic-Metabolomic Mining of Kinema, a Naturally Fermented Soybean Food of the Eastern Himalayas

P Kharnaior, JP Tamang - Frontiers in Microbiology, 2022 - frontiersin.org
Kinema is a popular sticky fermented soybean food of the Eastern Himalayan regions of
North East India, east Nepal, and south Bhutan. We hypothesized that some dominant …

High-throughput plant phenotyping: a role for metabolomics?

RD Hall, JC D'Auria, ACS Ferreira, Y Gibon… - Trends in Plant …, 2022 - cell.com
High-throughput (HTP) plant phenotyping approaches are developing rapidly and are
already helping to bridge the genotype–phenotype gap. However, technologies should be …

[HTML][HTML] The metaRbolomics Toolbox in Bioconductor and beyond

J Stanstrup, CD Broeckling, R Helmus, N Hoffmann… - Metabolites, 2019 - mdpi.com
Metabolomics aims to measure and characterise the complex composition of metabolites in
a biological system. Metabolomics studies involve sophisticated analytical techniques such …

Integration of metabolomic and other omics data in population-based study designs: an epidemiological perspective

SH Chu, M Huang, RS Kelly, E Benedetti, JK Siddiqui… - Metabolites, 2019 - mdpi.com
It is not controversial that study design considerations and challenges must be addressed
when investigating the linkage between single omic measurements and human phenotypes …

RaMP-DB 2.0: a renovated knowledgebase for deriving biological and chemical insight from metabolites, proteins, and genes

J Braisted, A Patt, C Tindall, T Sheils, J Neyra… - …, 2023 - academic.oup.com
Motivation Functional interpretation of high-throughput metabolomic and transcriptomic
results is a crucial step in generating insight from experimental data. However, pathway and …

Tools and resources for metabolomics research community: A 2017–2018 update

BB Misra, S Mohapatra - Electrophoresis, 2019 - Wiley Online Library
The scale at which MS‐and NMR‐based platforms generate metabolomics datasets for both
research, core, and clinical facilities to address challenges in the various sciences—ranging …

Metabolomics analytics workflow for epidemiological research: perspectives from the consortium of metabolomics studies (COMETS)

MC Playdon, AD Joshi, FK Tabung, S Cheng… - Metabolites, 2019 - mdpi.com
The application of metabolomics technology to epidemiological studies is emerging as a
new approach to elucidate disease etiology and for biomarker discovery. However, analysis …

PathMe: merging and exploring mechanistic pathway knowledge

D Domingo-Fernández, S Mubeen, J Marín-Llaó… - BMC …, 2019 - Springer
Background The complexity of representing biological systems is compounded by an ever-
expanding body of knowledge emerging from multi-omics experiments. A number of …