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ShareScore release 0.9.0
Dataset results
28 results for “Mitochondrial transport”
Mitochondrial pyruvate transport regulates presynaptic metabolism and neurotransmission
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Structural determinants of ligands recognition by the human mitochondrial basic amino acids transporter SLC25A29. Insights from molecular dynamics simulations of the c-state.
<p>Initial coordinates, molecular dynamics trajectories and representative snapshots resulting from the study "Structural determinants of ligands recognition by the human mitochondrial basic amino acids transporter SLC25A29. Insights from molecular dynamics simulations of the c-state." by Pasquadibisceglie and Polticelli.</p> <p>The MD folders contain the parameter/topology (parm7) and initial coordinates (rst7) for the molecular dynamics simulations. Moreover, a NetCDF trajectory "prod.nc" of the production phase is also included.<br> In detail:<br> - MD0 -> SLC25A29 in absence of ligands;<br> - MD1, MD3, MD4 -> SLC25A29-ARG complex;<br> - MD1-LYS, MD3-LYS, MD4-LYS -> SLC25A29-LYS complex.</p> <p>The folder PDB_figures contains the PDB files used to produce the figures presented in the manuscript.</p>
In silico analysis of the structural dynamics and substrate recognition determinants of the human mitochondrial carnitine/acylcarnitine SLC25A20 transporter
<p>Structural models and MD trajectories analyzed in the original article "In silico analysis of the structural dynamics and substrate recognition determinants of the human mitochondrial carnitine/acylcarnitine SLC25A20 transporter". Topologies and trajectories were stripped of the water molecules.</p> <p>- "alphafold2" contains the c-state and m-state models obtained with alphafold2 and colabfold_advanced, respectively;</p> <p>- "slc25a20_cstate" contains the parameter/topology file (slc25a20_cstate_nowat.parm7), the MD simulations of the c-model of the slc25a20 apo protein (prod1_nowat_skip10.nc, prod2_nowat_skip10.nc), and the representative structure used to analyzed the transmembrane helices (cstate1.pdb);</p> <p>- "slc25a20_mstate" contains the parameter/topology file (slc25a20_mstate_nowat.parm7), the MD simulations of the m-state model of the slc25a20 apo protein (prod1_nowat_skip10.nc, prod2_nowat_skip10.nc), and the representative structure used to analyzed the transmembrane helices (cstate2.pdb);</p> <p>- "slc25a20_car" contains the parameter/topology file (slc25a20_carn_nowat.parm7, slc25a20_carn2_nowat.parm7), the MD simulations of the slc25a20-carnitine complex (prod1_nowat_skip2.nc, prod2_nowat_skip2.nc), and a representative structure (snapshot_slc25a20-car.pdb);</p> <p>- "slc25a20_pcar" contains the parameter/topology file (slc25a20_pcarn_nowat.parm7, slc25a20_pcarn2_nowat.parm7), the MD simulations of the slc25a20-propionylcarnitine complex (prod1_nowat_skip2.nc, prod2_nowat_skip2.nc), and a representative structure (snapshot_slc25a20-pcar.pdb).</p> <p>If you include these data in your manuscript, please cite: Pasquadibisceglie A, Quadrotta V and Polticelli F "In silico analysis of the structural dynamics and substrate recognition determinants of the human mitochondrial carnitine/acylcarnitine SLC25A20 transporter"</p>
Data from: Cost of transport is a repeatable trait but is not determined by mitochondrial efficiency in zebrafish (Danio rerio)
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Functional characterization of a Drosophila melanogaster mitochondrial deoxynucleotide transporter dRIM2.
GEO Series GSE48012. Drosophila melanogaster. 7 samples. Type: Expression profiling by array.
Rewiring the Mitochondrial Electron Transport Chain Enhances Tumor Immunogenicity
GEO Series GSE235311. Mus musculus. 9 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Rewiring the Mitochondrial Electron Transport Chain Enhances Tumor Antigen Presentation and Immunogenicity
GEO Series GSE198348. Mus musculus. 10 samples. Type: Expression profiling by high throughput sequencing; Other.
Mitochondrial electron transport chain is necessary for NLRP3 inflammasome activation
GEO Series GSE197606. Mus musculus. 40 samples. Type: Expression profiling by high throughput sequencing.
Ectopic expression of cytosolic DHODH uncouples de novo pyrimidine biosynthesis from mitochondrial electron transport
GEO Series GSE314127. Homo sapiens. 16 samples. Type: Expression profiling by high throughput sequencing.
Rewiring the Mitochondrial Electron Transport Chain Enhances Tumor Antigen Presentation and Immunogenicity [scRNA-seq and scTCR-seq]
GEO Series GSE198347. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing; Other.
Rewiring the Mitochondrial Electron Transport Chain Enhances Tumor Antigen Presentation and Immunogenicity [bulk RNA-seq]
GEO Series GSE198346. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Lysosome-coupled mRNA transport maintains mitochondrial and ribosomal homeostasis in the axon
GEO Series GSE225479. Homo sapiens. 10 samples. Type: Expression profiling by high throughput sequencing.
Zinc Transporter 8 Haploinsufficiency Protects Against Beta Cell Dysfunction in Type 1 Diabetes by Increasing Mitochondrial Respiration
GEO Series GSE195464. Mus musculus. 18 samples. Type: Expression profiling by high throughput sequencing.
Mitochondrial iron transport via MFRN1 is required for erythroid cell cycle progression
GEO Series GSE277034. Danio rerio. 2 samples. Type: Expression profiling by high throughput sequencing.
RNA-seq analysis of the effect of mitochondrial glutamine transporter inhibitor treated pancreatic cancer cells
GEO Series GSE248719. Homo sapiens. 2 samples. Type: Expression profiling by high throughput sequencing.
Effect of mitochondrial electron transport chain blockade on transcriptomic profile in human H460 cells
GEO Series GSE265923. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
Analysis of gene expression profiles from the liver of rats treated with the mitochondrial electron transport chain complex III inhibitor GSK932121A (50mg/kg) or vehicle control
GEO Series GSE65374. Rattus norvegicus. 22 samples. Type: Expression profiling by array.
Genes expressed in age-induced mitochondrial DNA deletion mutation containing / Electron Transport abnormal cells
GEO Series GSE35607. Rattus norvegicus. 2 samples. Type: Expression profiling by array.
Inhibition of the mitochondrial electron transport chain by antimycin A in Arabidopsis thaliana
GEO Series GSE29204. Arabidopsis thaliana. 1 samples. Type: Expression profiling by array.
NSD2 Overexpression in Myeloma Enhances Dependency on Mitochondrial High Energy Phosphate Transport Facilitated by Adenylate Kinase 2 [AS_RS]
GEO Series GSE245149. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
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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.