A cross-study transcriptional patient map of heart failure defines conserved multicellular coordination in cardiac remodeling DOI Creative Commons
Jan D. Lanzer, Ricardo O. Ramirez Flores, José Liñares-Blanco

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 6, 2024

Abstract Heart failure (HF) is characterized by severely reduced cardiac function and tissue remodeling, driven complex multicellular regulatory processes. Extensive studies have generated molecular profiles at both bulk single-cell levels; however, systematic integration that describes tissue-wide changes as a of cell type coordination remains challenging. This disconnect hampers our understanding the interactions driving heart failure, limiting ability to translate insights into actionable therapeutic strategies. Here, we integrated transcriptional from tissues HF control patients across 25 studies, covering 1,524 individuals seven cell-types, delineate consensus associated with remodeling. Our analyses revealed conserved cellular events involving fibrotic, metabolic, inflammatory, hypertrophic mechanisms, fibroblasts playing central role in predicting cardiomyocyte stress. Further analysis fibroblast populations suggested their activation represents broad phenotypic shift rather than solely accumulating distinct states. The data within collection indicated responses types occur independently composition. Mapping independent programs demonstrated recovery after left ventricular assist device implantation aligns recovery, highlighting clinical relevance state. Overall, work synthesizes transcriptomics makes available, establishing reference for detailed exploration HF-related events. Graphical

Language: Английский

Balancing limited resources in actin network competition DOI

Christophe Guérin,

Anne-Betty N’Diaye,

Laurène Gressin

et al.

Current Biology, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 1, 2025

Language: Английский

Citations

1
Understanding resource competition to achieve predictable synthetic gene expression in eukaryotes DOI
Roberto Di Blasi, Jacopo Gabrielli, Kiyan Shabestary

et al.

Nature Reviews Bioengineering, Journal Year: 2024, Volume and Issue: 2(9), P. 721 - 732

Published: July 4, 2024

Language: Английский

Citations

5
Metabolic Objectives and Trade-Offs: Inference and Applications DOI Creative Commons
Da-Wei Lin,

Saanjh Khattar,

Sriram Chandrasekaran

et al.

Metabolites, Journal Year: 2025, Volume and Issue: 15(2), P. 101 - 101

Published: Feb. 6, 2025

Background/Objectives: Determining appropriate cellular objectives is crucial for the system-scale modeling of biological networks metabolic engineering, reprogramming, and drug discovery applications. The mathematical representation can describe how cells manage limited resources to achieve goals within mechanistic environmental constraints. While rapidly proliferating like tumors are often assumed prioritize biomass production, mammalian cell types exhibit beyond growth, such as supporting tissue functions, developmental processes, redox homeostasis. Methods: This review addresses challenge determining trade-offs from multiomics data. Results: Recent advances in single-cell omics, modeling, machine/deep learning methods have enabled inference at both transcriptomic levels, bridging gene expression patterns with phenotypes. Conclusions: These silico models provide insights into adapt changing environments, treatments, genetic manipulations. We further explore potential application incorporating personalized medicine, discovery, systems biology.

Language: Английский

Citations

0
Naphthenic Acid Fraction Components-Induced Metabolic and Mitochondrial Alterations in Rat Hepatoma Cells: Monitoring Metabolic Reprogramming with Tryptophan–Kynurenine Ratio DOI Creative Commons
Laiba Jamshed,

Amica Marie-Lucas,

Genevieve A. Perono

et al.

Journal of Xenobiotics, Journal Year: 2025, Volume and Issue: 15(3), P. 61 - 61

Published: April 24, 2025

Altered body condition and diminished growth in wildlife the Alberta Oil Sands Region (AOSR) are prompting investigations into impact of oil sands industrial activity on region. Chemical constituents from bitumen-influenced waters, including process-affected water (OSPW), can disrupt endocrine signaling, leading to aberrant lipid accumulation altered glycemic control mammals. This study aimed investigate effects naphthenic acid fraction components (NAFCs), derived OSPW, energy homeostasis using McA-RH7777 rat hepatocyte model. Cells were exposed NAFCs at nominal concentrations 0, 0.73, 14.7, 73.4 mg/L for 24 48 h. We assessed gene expression related glucose metabolism measured triglyceride accumulation, glucose, fatty uptake. NAFC exposure (14.7 mg/L) reduced levels uptake increased beta-oxidation genes, suggesting a metabolic switch oxidation. substrate availability signifies shift cellular dynamics, potentially linked mitochondrial function. To this, we conducted adenosine triphosphate (ATP), membrane potential, terminal deoxynucleotidyl transferase dUTP nick-end labeling (TUNEL) assays measure ATP levels, apoptosis, respectively. At both time points, resulted induced hyperpolarization, apoptosis. These results suggest that efficiency is compromised, necessitating adaptations maintain homeostasis. Given cells exhibit flexibility allows them dynamically respond changes availability, further demonstrated kynurenine-tryptophan ratio (KTR) serves as marker under these stress conditions. work provides mechanistic framework understanding how bitumen-derived organic contaminants may function living AOSR. findings support use molecular markers like KTR evaluate sub-lethal environmental health monitoring.

Language: Английский

Citations

0
Maintenance Execution: What and How – A PDCA Approach DOI Creative Commons

Christian Ighohor Okonta,

Ralphael Edokpia,

Christopher Eboigbe

et al.

Industrial engineering and management., Journal Year: 2024, Volume and Issue: unknown

Published: June 14, 2024

Maintenance execution determines the overall outcome of any maintenance policy and strategy adopted to keep a facility in reliable state. Once this is flawed, every other aspect process will not yield intended result, hence need focus attention on shopfloor tasks with adherence plans schedules. There are two major aspects execution: what do how it. What combination original equipment manufacturer recommendations source information relevant planning, such as historical data, experience from technicians, prognostic methodologies for data gathering. While almost unique equipment, it prerequisite proper planning execution. The how-to-do involves capability ability technicians carry out plan right knowledge, attitude, tool set. By adopting PDCA approach, systematic approach developed that covers both implementation sustaining reliability. result shows steady decline waste trend over 5% reduction amount less than 3 months.

Language: Английский

Citations

0
A cross-study transcriptional patient map of heart failure defines conserved multicellular coordination in cardiac remodeling DOI Creative Commons
Jan D. Lanzer, Ricardo O. Ramirez Flores, José Liñares-Blanco

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 6, 2024

Abstract Heart failure (HF) is characterized by severely reduced cardiac function and tissue remodeling, driven complex multicellular regulatory processes. Extensive studies have generated molecular profiles at both bulk single-cell levels; however, systematic integration that describes tissue-wide changes as a of cell type coordination remains challenging. This disconnect hampers our understanding the interactions driving heart failure, limiting ability to translate insights into actionable therapeutic strategies. Here, we integrated transcriptional from tissues HF control patients across 25 studies, covering 1,524 individuals seven cell-types, delineate consensus associated with remodeling. Our analyses revealed conserved cellular events involving fibrotic, metabolic, inflammatory, hypertrophic mechanisms, fibroblasts playing central role in predicting cardiomyocyte stress. Further analysis fibroblast populations suggested their activation represents broad phenotypic shift rather than solely accumulating distinct states. The data within collection indicated responses types occur independently composition. Mapping independent programs demonstrated recovery after left ventricular assist device implantation aligns recovery, highlighting clinical relevance state. Overall, work synthesizes transcriptomics makes available, establishing reference for detailed exploration HF-related events. Graphical

Language: Английский

Citations

0