Web-based multi-omics integration using the analyst software suite

JD Ewald, G Zhou, Y Lu, J Kolic, C Ellis, JD Johnson… - Nature …, 2024 - nature.com
The growing number of multi-omics studies demands clear conceptual workflows coupled
with easy-to-use software tools to facilitate data analysis and interpretation. This protocol …

MetaboAnalyst 6.0: towards a unified platform for metabolomics data processing, analysis and interpretation

Z Pang, Y Lu, G Zhou, F Hui, L Xu, C Viau… - Nucleic Acids …, 2024 - academic.oup.com
We introduce MetaboAnalyst version 6.0 as a unified platform for processing, analyzing, and
interpreting data from targeted as well as untargeted metabolomics studies using liquid …

A data-centric perspective on exposomics data analysis

L Chang, J Ewald, F Hui, S Bayen, J Xia - Exposome, 2024 - academic.oup.com
Exposomics represents a systematic approach to investigate the etiology of diseases by
formally integrating individuals' entire environmental exposures and associated biological …

Using ExpressAnalyst for Comprehensive Gene Expression Analysis in Model and Non‐Model Organisms

J Ewald, G Zhou, Y Lu, J Xia - Current Protocols, 2023 - Wiley Online Library
ExpressAnalyst is a web‐based platform that enables intuitive, end‐to‐end transcriptomics
and proteomics data analysis. Users can start from FASTQ files, gene/protein abundance …

Adverse environmental perturbations may threaten kelp farming sustainability by exacerbating Enterobacterales diseases

Y Zhang, S Nair, Z Zhang, J Zhao, H Zhao… - Environmental …, 2024 - ACS Publications
Globally kelp farming is gaining attention to mitigate land-use pressures and achieve carbon
neutrality. However, the influence of environmental perturbations on kelp farming remains …

Spenito-dependent metabolic sexual dimorphism intrinsic to fat storage cells

AV Diaz, D Stephenson, T Nemkov, A D'Alessandro… - Genetics, 2023 - academic.oup.com
Metabolism in males and females is distinct. Differences are usually linked to sexual
reproduction, with circulating signals (eg hormones) playing major roles. In contrast, sex …

A two-step transcriptome analysis of the human heart reveals broad and disease-responsive expression of ectopic olfactory receptors

S Ashraf, OH Frazier, S Carranza… - International Journal of …, 2023 - mdpi.com
G-protein-coupled receptors (GPCRs) are critical regulators of cardiac physiology and a key
therapeutic target for the treatment of heart disease. Ectopic olfactory receptors (ORs) are …

Extracellular vesicle biogenesis of three‐dimensional human pluripotent stem cells in a novel Vertical‐Wheel bioreactor

L Muok, L Sun, C Esmonde, H Worden… - Journal of …, 2024 - Wiley Online Library
Extracellular vesicles (EVs) secreted by human‐induced pluripotent stem cells (hiPSCs)
have great potential as cell‐free therapies in various diseases, including prevention of blood …

Hepatic Transcriptomic Responses to Ethinylestradiol in Embryonic Japanese Quail and Double‐crested Cormorant

YS Jeon, J Sangiovanni, E Boulanger… - Environmental …, 2024 - Wiley Online Library
Understanding species differences in sensitivity to toxicants is a critical issue in
ecotoxicology. We recently established that double‐crested cormorant (DCCO) embryos are …

[HTML][HTML] Role of oxidative phosphorylation in the antidepressant effects of arketamine via the vagus nerve-dependent spleen-brain axis

L Chang, Y Wei, Y Qu, M Zhao, X Zhou, Y Long… - Neurobiology of …, 2024 - Elsevier
Abstract Arketamine, the (R)-enantiomer of ketamine, exhibits antidepressant-like effects in
mice, though the precise molecular mechanisms remain elusive. It has been shown to …