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MetabolomicsMetabolomic correlation-network modules in Arabidopsis based on a graph-clustering approach
Deciphering the metabolome is essential for a better understanding of the cellular metabolism as a system. Typical metabolomics data show a few but significant correlations among metabolite levels when data sampling is repeated across individuals grown under strictly controlled conditions. Although ...
2014-03-01 | MTBLS45 | MetaboLights
MetabolomicsDivalent Aptamer-mediated Clustering for Extracellular Vesicle Separation
Extracellular vesicles (EVs) are important mediators of intercellular communication and promising sources of diagnostic and therapeutic biomarkers, yet effective EV isolation remains challenging due to trade-offs among yield, purity, and adaptability across biofluids. Here, we introduce divalent apt...
2026-05-04 | MTBLS14425 | MetaboLights
MetabolomicsThe dynamic clustering of insulin receptor underlies its signaling and is disrupted in insulin resistance
Insulin receptor (IR) signaling is central to normal metabolic control and is dysregulated in metabolic diseases such as type 2 diabetes. We report here that IR is incorporated into dynamic clusters at the plasma membrane, in the cytoplasm and in the nucleus of human hepatocytes and adipocytes. Insu...
2022-12-05 | MTBLS6505 | MetaboLights
TranscriptomicsChromosome positioning and the clustering of functionally related loci in yeast is driven by chromosomal interactions
In recent years there has been considerable and growing interest in the 3-dimensional organization of genomes. In yeast this has included detailed FISH studies that show a surprising degree of spatial clustering of the tRNA genes, the localization of telomeres, centromere positioning, and global stu...
ORGANISM(S): Saccharomyces cerevisiae 
2012-07-18 | E-GEOD-33018 | biostudies-arrayexpress
ProteomicsA Bothrops jararaca venom subproteome to benchmark a spectral clustering algorithm by controlling the selection bias
The clustering of mass spectra is a critical component of many proteomics applications. The clustering validation science is just as important, having evolved side by side with the clustering algorithms themselves. In this work, we build on Rieder et al. 's cluster validation framework, and we discu...
ORGANISM(S): Bothrops jararaca (Jararaca) (Bothrops jajaraca) 
2022-03-16 | PXD022124 | Pride
Bothrops jararaca Venomics Spectral clustering Algorithm 
ModelsJeon2018 - Enzyme clustering in Glucose metabolism
Miji Jeon, Hye-Won Kang & Songon An. A Mathematical Model for Enzyme Clustering in Glucose Metabolism. Scientific Reports 8, 1 (2018). We have recently demonstrated that the rate-limiting enzymes in human glucose metabolism organize into cytoplasmic clusters to form a multienzyme complex, the gluco...
2024-09-02 | BIOMD0000001055 | BioModels
ProteomicsDivalent Aptamer-mediated Clustering for Extracellular Vesicle Separation
Extracellular vesicles (EVs) are important mediators of intercellular communication and promising sources of diagnostic and therapeutic biomarkers, yet effective EV isolation remains challenging due to trade-offs among yield, purity, and adaptability across biofluids. Here, we introduce divalent apt...
ORGANISM(S): Homo Sapiens 
PXD078053 |
TranscriptomicsIMR90 radiation bystander time-course experiment 0.5Gy alpha particle
The radiation bystander effect is an important component of the overall biological response of tissues and organisms to ionizing radiation. Little is known about the contribution of genome level changes in neighboring bystander cells to tissue and organ stress after irradiation. The timing of these ...
ORGANISM(S): Homo sapiens 
2011-01-14 | E-GEOD-21059 | biostudies-arrayexpress
ProteomicsSUMOylation regulates Lem2 function in centromere clustering and silencing.
Regulation by the small modifier SUMO is heavily dependent on spatial control of enzymes that mediate the attachment and removal of SUMO on substrate proteins. Here we show that in fission yeast, delocalisation of the SUMO protease Ulp1 from the nuclear envelope results in centromeric defects that c...
ORGANISM(S): Schizosaccharomyces pombe 927 
2023-11-20 | PXD046003 | Pride
Ubiquitination Centromere Lem2 Sumoylation Fission yeast 
ModelsDasgupta2020 - Reduced model of receptor clusturing and aggregation
a simple kinetic mass-action-law-based model could be utilized to adequately describe clustering in response to activation both in 2D and in 3D
2024-09-02 | BIOMD0000000973 | BioModels
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