TransBic: bucket trend-preserving biclustering for finding local and interpretable expression patterns DOI Creative Commons
Jing Li,

Qinglin Mei,

Chaoxia Yang

и другие.

Briefings in Bioinformatics, Год журнала: 2024, Номер 26(1)

Опубликована: Ноя. 22, 2024

Biclustering has emerged as a promising approach for analyzing high-dimensional expression data, offering unique advantages in uncovering localized co-expression patterns that traditional clustering methods often miss and thus facilitating advancements complex disease research other biomedical applications. However, state-of-the-art identify distinct at the expense of losing information about specific patterns, some which have been used to define cancer subtypes or reflect progression cellular processes. Additionally, these exhibit poor effectiveness noisy environments. To address limitations, we propose bucket trend-preserving (BTP) pattern, novel generalization existing patterns. And developed an algorithm, TransBic, extract significant biclusters BTP-patterns. Specifically, TransBic transforms problem into identifying common multipartite acyclic tournament subdigraphs shared by subsets digraphs derived from given matrix. Compared with prominent tools, demonstrates superior performance all non-row-constant especially under noise data fluctuations. Furthermore, successfully identifies most disease-related pathways type 2 diabetes (T2D), colorectal cancer, hepatocellular carcinoma, breast outperforming tools this regard. Different previous generalizations, BTP-patterns capture up-regulation down-regulation dynamics. Through targeted analysis T2D uncovers biological processes affected risk factors, extending application biclustering analysis.

Язык: Английский

The paradox of fatty-acid β-oxidation in muscle insulin resistance: Metabolic control and muscle heterogeneity DOI Creative Commons
Marcel A. Vieira‐Lara, Barbara M. Bakker

Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease, Год журнала: 2024, Номер 1870(5), С. 167172 - 167172

Опубликована: Апрель 15, 2024

The skeletal muscle is a metabolically heterogeneous tissue that plays key role in maintaining whole-body glucose homeostasis. It well known insulin resistance (IR) precedes the development of type 2 diabetes. There consensus accumulation specific lipid species can drive IR. However, mitochondrial fatty-acid β-oxidation IR and, consequently, control uptake remains paradoxical: interventions either inhibit or activate have been shown to prevent We here discuss current theories and evidence for interplay between To address underlying intricacies, we (1) dive into fluxes tissues using framework Metabolic Control Analysis, (2) disentangle concepts flux catalytic capacities taking account heterogeneity. Finally, speculate about hitherto unexplored mechanisms could bring contrasting together. Elucidating how connected heterogeneity enhances disease understanding paves way new treatments

Язык: Английский

Процитировано

4
Gestational hyperglycaemia impacts glucose control and insulin sensitivity in mouse offspring DOI Creative Commons

K. Hribar,

Jack C. Fisher,

D. Eichhorn

и другие.

Scientific Reports, Год журнала: 2025, Номер 15(1)

Опубликована: Фев. 28, 2025

Abstract Gestational diabetes mellitus (GDM) predisposes offspring to the development of obesity and type 2 diabetes. While GDM is studied in context maternal insulin resistance, consequences lean, sensitive women for health are unclear. This preclinical study investigated whether lean dams characterized by reduced secretion affects metabolic health. Lean was induced short-term 60% high-fat diet low-dose streptozotocin injections before mating mice. The control received only (HF) or low-fat (LF). Glucose homeostasis chow-fed offspring. resulted decreased birth weight, that resolved at postnatal day 15 (PN15). At PN100, higher postprandial glucose responses were found offspring, while lower both HF Female showed endogenous production increased liver sensitivity PN100 compared controls. No differences parameters observed PN200 PN300. Prenatal exposure elevated levels without modestly affected regulation mouse during early adulthood. Future studies should clarify if a less favourable may further challenge dams.

Язык: Английский

Процитировано

0
Understanding Type 2 Diabetes Mellitus Risk Parameters through Intermittent Fasting: A Machine Learning Approach DOI Creative Commons
Shula Shazman

Nutrients, Год журнала: 2023, Номер 15(18), С. 3926 - 3926

Опубликована: Сен. 10, 2023

Type 2 diabetes mellitus (T2DM) is a chronic metabolic disorder characterized by elevated blood glucose levels. Despite the availability of pharmacological treatments, dietary plans, and exercise regimens, T2DM remains significant global cause mortality. As result, there an increasing interest in exploring lifestyle interventions, such as intermittent fasting (IF). This study aims to identify underlying patterns principles for effectively improving risk parameters through IF. By analyzing data from multiple randomized clinical trials investigating various IF interventions humans, machine learning algorithm was employed develop personalized recommendation system. system offers guidance tailored pre-diabetic diabetic individuals, suggesting most suitable improve parameters. With success rate 95%, this provides highly individualized advice, optimizing benefits diverse population subgroups. The outcomes lead us conclude that weight crucial feature females, while age plays determining role males reducing levels blood. revealing among not only practical but also sheds light on mechanisms T2DM, contributing deeper understanding complex disorder.

Язык: Английский

Процитировано

4
Endogenous Glucose Production in Patients With Glycogen Storage Disease Type Ia Estimated by Oral d-[6,6-2H2]-glucose DOI Creative Commons
Alessandro Rossi, Maaike H. Oosterveer, Theo H. van Dijk

и другие.

The Journal of Clinical Endocrinology & Metabolism, Год журнала: 2023, Номер 109(2), С. 389 - 401

Опубликована: Сен. 8, 2023

Glycogen storage disease type Ia (GSDIa) is an inborn metabolic disorder characterized by impaired endogenous glucose production (EGP). Monitoring of patients with GSDIa prioritized because ongoing treatment developments. Stable isotope tracers may enable reliable EGP monitoring.

Язык: Английский

Процитировано

1
Heptanoate Improves Compensatory Mechanism of Glucose Homeostasis in Mitochondrial Long-Chain Fatty Acid Oxidation Defect DOI Open Access
Siti Nurjanah, Albert Gerding, Marcel A. Vieira‐Lara

и другие.

Nutrients, Год журнала: 2023, Номер 15(21), С. 4689 - 4689

Опубликована: Ноя. 5, 2023

Defects in mitochondrial fatty acid β-oxidation (FAO) impair metabolic flexibility, which is an essential process for energy homeostasis. Very-long-chain acyl-CoA dehydrogenase (VLCADD; OMIM 609575) deficiency the most common long-chain FAO disorder presenting with hypoglycemia as a clinical manifestation. To prevent hypoglycemia, triheptanoin-a triglyceride composed of three heptanoates (C7) esterified glycerol backbone-can be used dietary treatment, since it metabolized into precursors gluconeogenesis. However, studies investigating effect triheptanoin on glucose homeostasis are limited. understand role gluconeogenesis pathophysiology defects, we injected VLCAD-deficient (VLCAD-/-) mice 13C3-glycerol presence and absence heptanoate (C7). The incorporation blood was higher VLCAD-/- than WT mice, whereas difference disappeared C7. result correlates 13C enrichment liver metabolites mice. In contrast, C7 bolus significantly decreased enrichment. These data suggest that increased contribution to overall production increases need substrate, thereby avoiding hypoglycemia. Heptanoate suitable substrate induce defect.

Язык: Английский

Процитировано

1
How lipid transfer proteins and the mitochondrial membrane shape the kinetics of β-oxidation the liver DOI
Christoff Odendaal, Dirk‐Jan Reijngoud, Barbara M. Bakker

и другие.

Biochimica et Biophysica Acta (BBA) - Bioenergetics, Год журнала: 2024, Номер unknown, С. 149519 - 149519

Опубликована: Окт. 1, 2024

Язык: Английский

Процитировано

0
Evaluation Of Nutritional Status In Adult Women Diagnosed With Insulin Resistance DOI Open Access
Nur Nagehan Kar, Aylin Seylam Küşümler

Erzincan Üniversitesi Fen Bilimleri Enstitüsü Dergisi, Год журнала: 2024, Номер SUIC, С. 99 - 115

Опубликована: Дек. 31, 2024

Objective: Obesity, which predisposes to various chronic metabolic diseases, is known as a risk factor for insulin resistance and its prevalence increasing both in the world our country. This study aimed assess nutritional status of 71 obese women with before after undergoing medical nutrition therapy. The participants, aged 18-65 years, were diagnosed obesity by physician at least six months ago. Materials Methods: collected sociodemographic information, health data, anthropometric measurements, food consumption frequencies, scores from Attitudes Towards Healthy Eating Scale Three-Factor Nutrition Questionnaire. Biochemical findings patient files three-day records also analyzed. Results: mean body mass index participants was 35.23±4.62 kg/m2 (p

Язык: Английский

Процитировано

0
TransBic: bucket trend-preserving biclustering for finding local and interpretable expression patterns DOI Creative Commons
Jing Li,

Qinglin Mei,

Chaoxia Yang

и другие.

Briefings in Bioinformatics, Год журнала: 2024, Номер 26(1)

Опубликована: Ноя. 22, 2024

Biclustering has emerged as a promising approach for analyzing high-dimensional expression data, offering unique advantages in uncovering localized co-expression patterns that traditional clustering methods often miss and thus facilitating advancements complex disease research other biomedical applications. However, state-of-the-art identify distinct at the expense of losing information about specific patterns, some which have been used to define cancer subtypes or reflect progression cellular processes. Additionally, these exhibit poor effectiveness noisy environments. To address limitations, we propose bucket trend-preserving (BTP) pattern, novel generalization existing patterns. And developed an algorithm, TransBic, extract significant biclusters BTP-patterns. Specifically, TransBic transforms problem into identifying common multipartite acyclic tournament subdigraphs shared by subsets digraphs derived from given matrix. Compared with prominent tools, demonstrates superior performance all non-row-constant especially under noise data fluctuations. Furthermore, successfully identifies most disease-related pathways type 2 diabetes (T2D), colorectal cancer, hepatocellular carcinoma, breast outperforming tools this regard. Different previous generalizations, BTP-patterns capture up-regulation down-regulation dynamics. Through targeted analysis T2D uncovers biological processes affected risk factors, extending application biclustering analysis.

Язык: Английский

Процитировано

0