Genome-scale models in human metabologenomics

A Mardinoglu, BØ Palsson - Nature Reviews Genetics, 2024 - nature.com
Metabologenomics integrates metabolomics with other omics data types to comprehensively
study the genetic and environmental factors that influence metabolism. These multi-omics …

Deep learning meets metabolomics: a methodological perspective

P Sen, S Lamichhane, VB Mathema… - Briefings in …, 2021 - academic.oup.com
Deep learning (DL), an emerging area of investigation in the fields of machine learning and
artificial intelligence, has markedly advanced over the past years. DL techniques are being …

Dysregulation of secondary bile acid metabolism precedes islet autoimmunity and type 1 diabetes

S Lamichhane, P Sen, AM Dickens, MA Alves… - Cell Reports …, 2022 - cell.com
The gut microbiota is crucial in the regulation of bile acid (BA) metabolism. However, not
much is known about the regulation of BAs during progression to type 1 diabetes (T1D) …

[HTML][HTML] Integrative biology of extracellular vesicles in diabetes mellitus and diabetic complications

J Liu, Y Zhang, Y Tian, W Huang, N Tong, X Fu - Theranostics, 2022 - ncbi.nlm.nih.gov
Diabetes mellitus (DM) is a chronic systemic disease with increasing prevalence globally.
An important aspect of diabetic pathogenesis is cellular crosstalk and information exchange …

Circulating sphingolipids in insulin resistance, diabetes and associated complications

SM Hammad, MF Lopes-Virella - International Journal of Molecular …, 2023 - mdpi.com
Sphingolipids play an important role in the development of diabetes, both type 1 and type 2
diabetes, as well as in the development of both micro-and macro-vascular complications …

Integrating Omics Data in Genome-Scale Metabolic Modeling: A Methodological Perspective for Precision Medicine

P Sen, M Orešič - Metabolites, 2023 - mdpi.com
Recent advancements in omics technologies have generated a wealth of biological data.
Integrating these data within mathematical models is essential to fully leverage their …

EVOO supplement prevents type 1 diabetes by modulating gut microbiota and serum metabolites in NOD mice

Y Wang, Y Shen, S Lu, J Wu - Life Sciences, 2023 - Elsevier
Aims Extra virgin olive oil (EVOO) is the highest quality olive oil available and has been
shown to regulate postprandial blood glucose in patients with type 1 diabetes (T1D) …

[HTML][HTML] Systems biology approaches to study lipidomes in health and disease

MA Alves, S Lamichhane, A Dickens… - … et Biophysica Acta (BBA …, 2021 - Elsevier
Lipids have many important biological roles, such as energy storage sources, structural
components of plasma membranes and as intermediates in metabolic and signaling …

Quantitative modeling of human liver reveals dysregulation of glycosphingolipid pathways in nonalcoholic fatty liver disease

P Sen, O Govaere, T Sinioja, A McGlinchey, D Geng… - Iscience, 2022 - cell.com
Nonalcoholic fatty liver disease (NAFLD) is an increasingly prevalent disease that is
associated with multiple metabolic disturbances, yet the metabolic pathways underlying its …

Circulating free fatty acid and phospholipid signature predicts early rapid kidney function decline in patients with type 1 diabetes

F Afshinnia, TM Rajendiran, C He, J Byun… - Diabetes …, 2021 - Am Diabetes Assoc
OBJECTIVES Patients with type 1 diabetes (T1D) exhibit modest lipid abnormalities as
measured by traditional metrics. This study aimed to identify lipidomic predictors of rapid …