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79 results for “GPCR”
Performance of virtual screening against GPCR homology models: Impact of template selection and treatment of binding site plasticity
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The adhesion GPCR GPR116/ADGRF5 has a dual function in pancreatic islets regulating somatostatin release and islet development
<p><span>Glucose homeostasis is maintained by hormones secreted from different cell types of the pancreatic islets and controlled by manifold input including signals mediated through G protein-coupled receptors (GPCRs). RNA-seq analyses revealed expression of numerous GPCRs in mouse and human pancreatic islets, among them <em>Gpr116</em>/<em>Adgrf5</em>. GPR116 is an adhesion GPCR mainly found in lung and required for surfactant secretion. Here, we demonstrate that GPR116 is involved in the somatostatin release from pancreatic delta cells using a whole-body as well as a cell-specific knock-out mouse model. Interestingly, the whole-body GPR116 deficiency causes further changes such as decreased beta-cell mass, lower number of small islets, and reduced pancreatic insulin content. Glucose homeostasis in global GPR116-deficient mice is maintained by counter-acting mechanisms modulating insulin degradation. Our data highlight an important function of GPR116 in controlling glucose homeostasis. </span></p>
Structural basis for the access and binding of resolvin D1 (RvD1) to formyl peptide receptor 2 (FPR2/ALX), a class A GPCR
<p>Trajectory and structure files for Structural basis for the access and binding of resolvin D1 (RvD1) to formyl peptide receptor 2 (FPR2/ALX), a class A GPCR.</p>
GPCR dataset
<p>This repository contains files of GPCR sequences, MSAs, and structures. The list of the GPCRs were attained on July 31, 2021. MSAs were generated by searching homologous sequences against UniRef30 database using MMseqs2. </p>
Input files for DP GPCR-FEP paper
<p>We expended Uni-FEP on the web server Hermite™ (https://hermite.dp.tech/)\cite{hermite} for application in membrane proteins. Uni-FEP calculations were performed on 139 ligands against 8 GPCRs. We released our input structures for FEP calculation, which could serve as a benchmark dataset for future GPCR-FEP studies.</p>
Asthma, Inflammation and G Protein-coupled Receptors (GPCR)
ClinicalTrials.gov study NCT00793676. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Supporting data: Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?
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Cortical astrocytes independently regulate sleep depth and duration via separate GPCR pathways
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Data from: Genomic signatures of GPCR expansions reveal functional transitions in the evolution of cephalopod signal transduction
Coleoid cephalopods show unique morphological and neural novelties, such as arms with tactile and chemosensory suckers and a large complex nervous system. The evolution of such cephalopod novelties has been attributed at a genomic level to independent gene family expansions, yet the exact association and the evolutionary timing remain unclear. In the octopus genome, one such expansion occurred in the G-protein coupled receptors (GPCRs) repertoire, a superfamily of proteins that mediate signal transduction. Here we assessed the evolutionary history of this expansion and its relationship with cephalopod novelties. Using phylogenetic analyses, two cephalopod- and two octopus-specific GPCR expansions were identified. Signatures of positive selection were analysed within the four groups, and the locations of these sequences in the Octopus bimaculoides genome were inspected. Additionally, the expression profiles of octopus GPCRs across various tissues were extracted from available transcriptomic data. Our results reveal the evolutionary history of cephalopod GPCRs. Unexpanded cephalopod GPCRs shared with other bilaterians were found to be mainly nervous tissue-specific. In contrast, duplications that are shared between octopus and the bobtail squid or specific to the octopus' lineage generated copies with divergent expression patterns devoted to tissues outside of the brain. The acquisition of novel expression domains was accompanied by gene order rearrangement either through translocation or duplication and gene loss. Lastly, expansions showed signs of positive selection and some were found to form tandem clusters with shared conserved expression profiles in cephalopod innovations such as the axial nerve cord. Altogether, our results contribute to the understanding of the molecular and evolutionary history of signal transduction and provide insights into the role of this expansion during the emergence of cephalopod novelties and/or adaptations.
Kripo GPCR subset
<p>KRIPO stands for Key Representation of Interaction in POckets, see <a href="http://dx.doi.org/10.1186/1758-2946-6-S1-O26">reference</a> for more information.</p> <p>Subset of Kripo fragments and distance matrix of all G protein-coupled receptor in the Protein Data Bank. </p> <ul> <li>pdbs.txt -- List of GPCR PDB identifiers</li> <li>kripo.gpcr.sqlite -- Fragments of PDB identifiers</li> <li>kripo.gpcrandhits.sqlite -- Fragments of GPCR PDB identifiers and their most similar fragments from whole PDB</li> <li>kripo.gpcr.h5 -- Distance matrix of GPCR PDB identifiers and their most similar fragments from whole PDB</li> </ul> <p> </p> <p> </p>
The world of GPCR dimers - mapping dopamine receptor D2 homodimers in different activation states and configuration arrangements
<p>G protein-coupled receptors (GPCRs) are known to dimerize, but the molecular and structural basis of GPCR dimers is not well understood. We developed a computational framework to generate models of the dopamine receptor D2 (D<sub>2</sub>R) homodimer in different activation states of the monomers and identified their most likely interfaces with molecular detail and contacts formed between interfacial residues. Such contacts were followed along a 3 replicates of 500 ns molecular dynamics simulation. </p> <p>The dataset presented here is a summary of all interfacial contacts, such as hydrogen bonds, pi-cation, pi-stacking, salt-bridges and t-stacking interactions, which occur within the interfaces of the different dimer configurations. The information can be viewed as dynamical flareplots, by uploading the .json files to https://gpcrviz.github.io/flareplot/. </p> <p>Contacts were measured using GetContacts (https://getcontacts.github.io/).</p> <p> </p> <p>6CM4-6CM4 = inactive-inactive</p> <p>6CM4-6U1N = inactive-arrestin</p> <p>6U1N-6U1N = arrestin-arrestin</p> <p>6VMS-6CM4 = active-inactive</p> <p>6VMS-6U1N = active-arrestin</p> <p>6VMS-6VMS = active-active</p>
Data from: The GPCR repertoire in the demosponge Amphimedon queenslandica: insights into the GPCR system at the early divergence of animals
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Data from: Genomic signatures of GPCR expansions reveal functional transitions in the evolution of cephalopod signal transduction
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Transcriptome analysis of Drosophila melanogaster intestines upon knockdown of Tachykinin (Tk), the GPCR GulpR (CG32547), and bruchpilot (brp)
GEO Series GSE294931. Drosophila melanogaster. 12 samples. Type: Expression profiling by high throughput sequencing.
OR7A10 GPCR engineering boosts CAR-NK therapy against solid tumors
GEO Series GSE310267. Homo sapiens. 36 samples. Type: Expression profiling by high throughput sequencing.
GPCR-induced YAP activation sensitizes fibroblasts to profibrotic effects of TGFβ1
GEO Series GSE125519. Homo sapiens. 16 samples. Type: Expression profiling by array.
Survey of GPCR gene expression in apterous-GAL4/+ Drosophila wing discs
GEO Series GSE169490. Drosophila melanogaster. 3 samples. Type: Expression profiling by high throughput sequencing.
OR7A10 GPCR engineering boosts CAR-NK therapy against solid tumors [Primary Screen]
GEO Series GSE309800. Homo sapiens. 15 samples. Type: Other.
OR7A10 GPCR engineering boosts CAR-NK therapy against solid tumors
GEO Series GSE309802. Homo sapiens. 78 samples. Type: Expression profiling by high throughput sequencing; Other.
Data for Alternative Splicing of Adhesion-GPCR Latrophilin-3 Controls Synapse Formation
GEO Series GSE240791. Mus musculus. 13 samples. Type: Expression profiling by high throughput sequencing; Other.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.