RESOLUTE
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB81360 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR14335900_1.fastq.gz | Fastqsanger.gz | |||
| ERR14335900_2.fastq.gz | Fastqsanger.gz | |||
| ERR14336000_1.fastq.gz | Fastqsanger.gz | |||
| ERR14336000_2.fastq.gz | Fastqsanger.gz | |||
| ERR14336100_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 11944 |
Similar Datasets
Project description:The solute carrier (SLC) transporter superfamily are important coordinators of metabolic and cellular homeostasis. Despite their importance for cellular homeostasis, SLCs remain a largely understudied group of proteins regarding their protein interactome. Thus, we conducted a largescale interactome proteomics study to characterize the interactome of roughly 400 of the 450 superfamily members. Within this study, we validated selected SLC-protein interactions by different assays (e.g.: protein stability, transporter activity assays), in combination with RNA interference (RNAi). For a small subset of the targeted interactors, we used full protein profiling by quantitative mass spectrometry to confirm alleviation of the protein abundance upon RNAi. To validate RNAi downregulation of gene expression on protein level, we assessed protein abundance of ZPFL1, LTN1 and NFXL1 after siRNA treatment.
2025-03-03 | PXD055192 | Pride
Project description:Solute carrier (SLC) transporters form a major superfamily which transport a wide range of substrates across cellular and organellar membranes. The superfamily consists of about 450 members and includes passive transporters, antiporters and symporters. To ensure the homeostatic regulation of metabolism and energetic household, transporters need to act in concert and be linked to the regulatory processes and pathways of cells. While there is ample evidence that regulation of transporter activity requires protein interactions, a comprehensive interactome of the whole human transproteome has not been described. We report here the first characterisation of the interactome of SLC transporters. To this aim, we applied an affinity purification combined with mass spectrometry (AP-MS) protocol tailored to transmembrane proteins to map the protein interactome for 400 solute carriers. The generated interactome covers thousands of novel protein-protein interactions, therefore providing a basis for understanding the molecular regulation of this protein superfamily. The SLC-interactome was dissected by clustering analysis, including SLC interactome-profile similarity-based clustering. The clustering revealed the association of SLCs with protein folding and trafficking. Thus, a selected set of interaction partners, associated with the proteostatic and trafficking regulation of SLCs, were selected for validation. We employed a high-throughput protein stability assay in combination with genetic perturbation of these selected interaction partners, to identify interactors which influence the abundance levels of SLCs or their subcellular locations. For selected interactions we performed transporter activity assays to show a direct modulation of transporter activity upon perturbation of protein interactions. Our work provides thus important insight into the complex molecular network of SLCs.
2025-03-03 | PXD055605 | Pride
Project description:<p>Solute carrier (SLC) transporters govern most of the chemical exchange across cellular membranes and are integral to metabolic regulation, which in turn is linked to cellular function and identity. Despite their key role, individual functions of the SLC superfamily members were not evaluated systematically. We determined the metabolic and transcriptional profiles upon SLC overexpression in knock-out or wild-type isogenic cell backgrounds for 378 SLCs and 441 SLCs, respectively. Targeted metabolomics provided a fingerprint of 189 intracellular metabolites, while transcriptomics offered insights into cellular programs modulated by SLC expression. Beyond the metabolic profiles of 102 SLCs directly related to their known substrates, we identified putative substrates or metabolic pathway connections for 71 SLCs without previously annotated bona fide substrates, including SLC45A4 as a new polyamine transporter. By comparing the molecular profiles, we identified functionally related SLC groups, including some with distinct impacts on osmolyte balancing and glycosylation. </p><p>This MetaboLights study deposits LC-MS data from ad-hoc targeted metabolite measurements for deorphanization of SLC45A4 and validation of an osmolyte balancing response identified in one of the transcriptomic clusters.</p>
2025-07-22 | MTBLS11393 | MetaboLights
Project description:We selected si-SLC37A3-transfected HuH-7 cells in vitro to investigate the role of solute carrier family 37 member 3 in the progression of HCC
2025-11-05 | GSE217588 | GEO
Project description:Adult myelination is essential for brain function and response to injury, but the molecular mechanisms remain elusive. Here we identify DNA hydroxy-methylation, an epigenetic mark catalyzed by Ten-Eleven translocation (TET) enzymes, as necessary for adult myelin repair. While DNA hydroxy-methylation and high levels of TET1 were detected in young adult mice during myelin regeneration after demyelination, this process was defective in old mice. Constitutive or inducible lineage-specific ablation of Tet1 (but not of Tet2) recapitulated the age-related decline of DNA hydroxy-methylation and inefficient remyelination. Genome-wide hydroxy-methylation and transcriptomic analysis identified solute carrier gene families as TET1 targets. Lower transcripts for these genes in Tet1 mutants and old mice were associated with swelling at the neuroglial interface, a phenotype detected also in zebrafish Slc12a2b mutants. We conclude that TET1-mediated DNA hydroxy-methylation is necessary for adult myelination after injury, by modulating the levels of the solute carrier SLC12A2 at the axo-myelin interface.
2020-03-14 | GSE137611 | GEO
Project description:<p>Solute carrier (SLC) transporters govern most of the chemical exchange across cellular membranes and are integral to metabolic regulation, which in turn is linked to cellular function and identity. Despite their key role, individual functions of the SLC superfamily members were not evaluated systematically. We determined the metabolic and transcriptional profiles upon SLC overexpression in knock-out or wild-type isogenic cell backgrounds for 378 SLCs and 441 SLCs, respectively. Targeted metabolomics provided a fingerprint of 189 intracellular metabolites, while transcriptomics offered insights into cellular programs modulated by SLC expression. Beyond the metabolic profiles of 102 SLCs directly related to their known substrates, we identified putative substrates or metabolic pathway connections for 71 SLCs without previously annotated bona fide substrates, including SLC45A4 as a new polyamine transporter. By comparing the molecular profiles, we identified functionally related SLC groups, including some with distinct impacts on osmolyte balancing and glycosylation. The assessment of functionally related human genes presented here may serve as a blueprint for other systematic studies and supports future investigations into the functional roles of SLCs.</p>
2025-04-08 | MTBLS10077 | MetaboLights
Project description:Mutations in the solute-linked carrier family 4 member 11 (SLC4A11) gene are associated with several corneal endothelial dystrophies, in all of which visually significant cornea edema may require corneal transplantation. To elucidate the pathogenesis of SLC4A11 associated corneal endothelial dystrophies, we analyzed the transcriptome of SLC4A11 knock-down primary human corneal endothelium (SLC4A11 KD pHCEnC) and scrambled RNA treated pHCEnC as controls.
2020-08-13 | GSE142636 | GEO
Project description:RNA-Seq was carried out in order to obtain the expression profile of Solute Carrier Family (SLC) of proteins in two commonly used celllines. We were specifically interested in the subset of SLCs that are capable of transporting amino acids.
2015-01-07 | E-MTAB-3102 | biostudies-arrayexpress
Project description:Role of Solute carrier family 37 member 3 in hepatocellular carcinoma
| PRJNA899717 | ENA
Project description:To investigate the effect of solute carrier family 11 member 2 (SLC11A2) knockout on osteoclast differentiation, BMMs were extracted from the femurs of SLC11A2 knockout mice and the same litter of control mice, treated with RANKL, and then rna sequencing was performed.
2024-12-15 | GSE283491 | GEO