[HTML][HTML] Systems metabolomics: From metabolomic snapshots to design principles
Highlights•High content and physiological readouts allow precise definition of the system-
level metabolic state of cells or tissues.•Constraint-based metabolic models provide a …
level metabolic state of cells or tissues.•Constraint-based metabolic models provide a …
Integration of single-cell RNA-seq data into population models to characterize cancer metabolism
Metabolic reprogramming is a general feature of cancer cells. Regrettably, the
comprehensive quantification of metabolites in biological specimens does not promptly …
comprehensive quantification of metabolites in biological specimens does not promptly …
INTEGRATE: Model-based multi-omics data integration to characterize multi-level metabolic regulation
Metabolism is directly and indirectly fine-tuned by a complex web of interacting regulatory
mechanisms that fall into two major classes. On the one hand, the expression level of the …
mechanisms that fall into two major classes. On the one hand, the expression level of the …
GPRuler: Metabolic gene-protein-reaction rules automatic reconstruction
Metabolic network models are increasingly being used in health care and industry. As a
consequence, many tools have been released to automate their reconstruction process de …
consequence, many tools have been released to automate their reconstruction process de …
Dystrophin deficiency affects human astrocyte properties and response to damage
In addition to progressive muscular degeneration due to dystrophin mutations, 1/3 of
Duchenne muscular dystrophy (DMD) patients present cognitive deficits. However, there is …
Duchenne muscular dystrophy (DMD) patients present cognitive deficits. However, there is …
Single-cell digital twins for cancer preclinical investigation
Laboratory models derived from clinical samples represent a solid platform in preclinical
research for drug testing and investigation of disease mechanisms. The integration of these …
research for drug testing and investigation of disease mechanisms. The integration of these …
Combining denoising of RNA-seq data and flux balance analysis for cluster analysis of single cells
Background Sophisticated methods to properly pre-process and analyze the increasing
collection of single-cell RNA sequencing (scRNA-seq) data are increasingly being …
collection of single-cell RNA sequencing (scRNA-seq) data are increasingly being …
Unraveling the glycosphingolipid metabolism by leveraging transcriptome-weighted network analysis on neuroblastic tumors
A Ustjanzew, AS Nedwed, R Sandhoff, J Faber… - Cancer & …, 2024 - Springer
Abstract Background Glycosphingolipids (GSLs) are membrane lipids composed of a
ceramide backbone linked to a glycan moiety. Ganglioside biosynthesis is a part of the GSL …
ceramide backbone linked to a glycan moiety. Ganglioside biosynthesis is a part of the GSL …
Characterizing cancer metabolism from bulk and single-cell RNA-seq data using METAFlux
Cells often alter metabolic strategies under nutrient-deprived conditions to support their
survival and growth. Characterizing metabolic reprogramming in the tumor …
survival and growth. Characterizing metabolic reprogramming in the tumor …
Transcriptome analysis reveals gender-specific differences in overall metabolic response of male and female patients in lung adenocarcinoma
Y Li, CL He, WX Li, RX Zhang, Y Duan - PLoS One, 2020 - journals.plos.org
Background Evidence from multiple studies suggests metabolic abnormalities play an
important role in lung cancer. Lung adenocarcinoma (LUAD) is the most common subtype of …
important role in lung cancer. Lung adenocarcinoma (LUAD) is the most common subtype of …