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MetabolomicsMultiomics of synaptic junctions reveals altered lipid metabolism and signaling following environmental enrichment
Membrane lipids and their metabolism have key functions in neurotransmission. Here we provide a quantitative lipid inventory of mouse and rat synaptic junctions. To this end, we developed a multiomics extraction and analysis workflow to probe the interplay of proteins and lipids in synaptic signal t...
2021-09-27 | MTBLS1531 | MetaboLights
TranscriptomicsTranscription profiling of mouse VE-cadherin null cell line vs contrik
In order to identify genes regulated by VE-cadherin expression, we compared a mouse VE-cadherin null cell line (VEC null) with the same line reconstituted with VE-cadherin wild type cDNA (VEC positive). The morphological and functional properties of these cell lines were described previously [Lampug...
ORGANISM(S): Mus musculus 
2008-10-20 | E-GEOD-11674 | biostudies-arrayexpress
ProteomicsProximity proteomics identifies PAK4 as a component of Afadin–Nectin junctions.
Human PAK4 is an ubiquitously expressed p21-activated kinase which acts downstream of Cdc42. Since PAK4 is demonstrably enriched in cell-cell junctions, we probed the local protein environment around the kinase with a view to understanding its location and substrates. In U2OS cells expressing PAK4-B...
ORGANISM(S): Homo sapiens (Human) 
2021-11-30 | PXD024464 | Pride
Lzts2 Pak4 Cdc42 Bioid Epithelial cells Protein kinase Cell junctions 
ProteomicsAltered GM1 catabolism affects NMDAR-mediated Ca2+ signaling at ER-PM junctions and increases synaptic spine formation
GM1-ganglioside, an abundant GSL in neuronal membranes, is integral to ER-PM junctions where it interacts with synaptic proteins/receptors and regulates Ca2+ signaling.
ORGANISM(S): Mus musculus (Mouse) 
2024-03-19 | PXD042994 | Pride
Membrane contact sites (mcs) Glycosphingolipids (gsls) Proteomics 
ProteomicsMulti-omics reveals the lipid inventory of synaptic junctions and altered lipid signaling in environmental enrichment
Membrane lipids are essential components of synaptic junctions that have key functions in neurotransmission. In the first part of the study, we provide a quantitative lipid inventory of mouse and rat synaptic junctions. We next used a simultaneous multi-omics extraction and analysis workflow termed ...
ORGANISM(S): Mus musculus (Mouse) Rattus norvegicus (Rat) 
2023-11-14 | PXD017997 | Pride
Enriched environment Lipidomics Multi-omics Endocannabinoid signaling Synaptic junctions 
ProteomicsVE-PTP inhibition stabilizes endothelial junctions by activating FGD5
Inhibition of VE-PTP, an endothelial receptor type tyrosine phosphatase, triggers phosphorylation of the tyrosine kinase receptor Tie-2, which leads to the suppression of inflammation-induced vascular permeability. Analyzing the underlying mechanism, we show here that inhibition of VE-PTP and activa...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2019-05-04 | PXD010959 | Pride
Junctions Phosphatase Transmigration Signalling Ve-ptp Lc-msms Fgd5 Shotgun proteomics Inflammation Ptprb Tyrosine kinase receptor Adhesion Phosphorylation Endothelium 
ProteomicsProximity proteomics provides a new resource for exploring the function of Afadin and the complexity of cell-cell adherens junctions
Afadin and its Drosophila homolog Canoe are key components of the network of proteins that help link cell-cell adherens junctions to the actomyosin cytoskeleton. They stabilize this connection as force is generated to drive cell shape change and migration during embryonic morphogenesis, organogenes...
ORGANISM(S): Canis familiaris (Dog) (Canis lupus familiaris) 
2025-01-20 | PXD056971 | Pride
Bioid Afadin Cell-cell adherens junctions 
TranscriptomicsThe exon junction complex is restricted to a specific subset of splice junctions
We employ multi-step affinity purification followed by high-throughput sequencing to determine the location of EJC complexes assembled on a cellular transcriptome in Drosophila S2 cells, finding 6% of the intron-containing genes were not associated with EJCs, and within genes with multiple introns,...
ORGANISM(S): Drosophila melanogaster 
2014-11-04 | E-GEOD-33475 | biostudies-arrayexpress
TranscriptomicsGENCODE PCR-Seq Batch XI
As part of the ENCODE consortium the GENCODE project is producing a reference gene set through manual and automated gene prediction. Selected transcript models are verified experimentally by RT-PCR amplification of at least one of their unique splice junctions followed by sequencing. The experiment ...
ORGANISM(S): Homo sapiens 
2013-02-19 | E-MTAB-1505 | biostudies-arrayexpress
GenomicsSecretome translation shaped by Lysosomes and Lunapark-marked ER Junctions
Secretome translation shaped by Lysosomes and Lunapark-marked ER Junctions
PRJNA1334604 | ENA
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