Functional Modules of the Proteostasis Network.
Sign Up to like & getrecommendations! Published in 2019 at "Cold Spring Harbor perspectives in biology"
DOI: 10.1101/cshperspect.a033951
Abstract: Cells invest in an extensive network of factors to maintain protein homeostasis (proteostasis) and prevent the accumulation of potentially toxic protein aggregates. This proteostasis network (PN) comprises the machineries for the biogenesis, folding, conformational maintenance,… read more here.
Keywords: network; functional modules; proteostasis; proteostasis network ... See more keywords
Viewing the Meso-Scale Structures in Protein-Protein Interaction Networks Using 2-Clubs
Sign Up to like & getrecommendations! Published in 2018 at "IEEE Access"
DOI: 10.1109/access.2018.2852275
Abstract: Many current analyses on protein-protein interaction (PPI) networks concentrate on developing the algorithms for identifying the functional modules within the PPI networks. However, understanding the internal structure in the functional modules is needed to define… read more here.
Keywords: protein interaction; meso scale; functional modules; ppi networks ... See more keywords
A Robust Algorithm Based on Link Label Propagation for Identifying Functional Modules from Protein-protein Interaction Networks.
Sign Up to like & getrecommendations! Published in 2020 at "IEEE/ACM transactions on computational biology and bioinformatics"
DOI: 10.1109/tcbb.2020.3038815
Abstract: Identifying functional modules in protein-protein interaction (PPI) networks elucidates cellular organization and mechanism. Various methods have been proposed to identify the functional modules in PPI networks, but most of these methods do not consider the… read more here.
Keywords: modules protein; functional modules; protein protein; noisy links ... See more keywords
Deconstructing the Soil Microbiome into Reduced-Complexity Functional Modules
Sign Up to like & getrecommendations! Published in 2020 at "mBio"
DOI: 10.1128/mbio.01349-20
Abstract: The taxonomic and functional diversity inherent to the soil microbiome complicate assessments of the metabolic potential carried out by the community members. An alternative approach is to break down the soil microbiome into reduced-complexity subsets… read more here.
Keywords: soil microbiome; reduced complexity; soil; functional modules ... See more keywords
Capturing context-specific regulation in molecular interaction networks
Sign Up to like & getrecommendations! Published in 2018 at "BMC Bioinformatics"
DOI: 10.1186/s12859-018-2513-7
Abstract: BackgroundMolecular profiles change in response to perturbations. These changes are coordinated into functional modules via regulatory interactions. The genes and their products within a functional module are expected to be differentially expressed in a manner… read more here.
Keywords: interaction networks; network; context; molecular interaction ... See more keywords
Analysing the meta-interaction between pathways by gene set topological impact analysis
Sign Up to like & getrecommendations! Published in 2020 at "BMC Genomics"
DOI: 10.1186/s12864-020-07148-y
Abstract: Background Pathway analysis is widely applied in transcriptome analysis. Given certain transcriptomic changes, current pathway analysis tools tend to search for the most impacted pathways, which provides insight into underlying biological mechanisms. Further refining of… read more here.
Keywords: gene set; topological impact; analysis; functional modules ... See more keywords
Identification of protein complexes and functional modules in E. coli PPI networks
Sign Up to like & getrecommendations! Published in 2020 at "BMC Microbiology"
DOI: 10.1186/s12866-020-01904-6
Abstract: Escherichia coli always plays an important role in microbial research, and it has been a benchmark model for the study of molecular mechanisms of microorganisms. Molecular complexes, operons, and functional modules are valuable molecular functional… read more here.
Keywords: protein; identification protein; functional modules; ppi networks ... See more keywords
Cross-species functional modules link proteostasis to human normal aging
Sign Up to like & getrecommendations! Published in 2019 at "PLoS Computational Biology"
DOI: 10.1371/journal.pcbi.1007162
Abstract: The evolutionarily conserved nature of the few well-known anti-aging interventions that affect lifespan, such as caloric restriction, suggests that aging-related research in model organisms is directly relevant to human aging. Since human lifespan is a… read more here.
Keywords: modules link; cross species; functional modules; normal aging ... See more keywords
Identification of hub genes and functional modules in colon adenocarcinoma based on public databases by bioinformatics analysis.
Sign Up to like & getrecommendations! Published in 2021 at "Journal of gastrointestinal oncology"
DOI: 10.21037/jgo-21-415
Abstract: Background Colon adenocarcinoma (COAD) is one of the most common cancers in the world. Although an extensive effort has been made to elucidate its pathogenesis, the underlying molecular mechanisms and genetic characteristics remain elusive. Methods… read more here.
Keywords: functional modules; hub; hub genes; genes functional ... See more keywords
Identification of Critical Functional Modules and Signaling Pathways in Osteoporosis
Sign Up to like & getrecommendations! Published in 2020 at "Current Bioinformatics"
DOI: 10.2174/1574893615999200706002411
Abstract: Osteoporosis is the most common bone metabolic disease. Abnormal osteoclast formation and resorption play a fundamental role in osteoporosis pathogenesis. Recent researches have greatly broadened our understanding of molecular mechanisms of osteoporosis. However, the molecular… read more here.
Keywords: signaling pathways; analysis; functional modules; topology ... See more keywords
Functional Modules in Gametogenesis
Sign Up to like & getrecommendations! Published in 2022 at "Frontiers in Cell and Developmental Biology"
DOI: 10.3389/fcell.2022.914570
Abstract: Gametogenesis, the production of eggs and sperm, is a fundamental process in sexually reproducing animals. Following gametogenesis commitment and sexual fate decision, germ cells undergo several developmental processes to halve their genomic size and acquire… read more here.
Keywords: modules gametogenesis; biology; functional modules; gametogenesis ... See more keywords