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8 results for “Ryanodine receptor”
Ryanodine receptor model exploration in Virtual Reality with UnityMol
<p>Here we provide supplementary material to our article on integrative modeling. We explor one of the models generated for the ryanodine receptor.</p> <p> </p> <p>In particular, we show ryanodine receptor model exploration in Virtual Reality with UnityMol, demonstrating also some features of the software.</p> <p> </p> <p>The exploration looks at the overall structure, the packing integrity of the subunits, the channel pore, the channel constriction, the S6 helix and the transmembrane domain in particular.</p>
CARDIOMYOCYTE RYANODINE RECEPTOR CLUSTERS EXPAND AND COALESCE AFTER APPLICATION OF ISOPROTERENOL
<p>This is data that was used to generate the figures and tables for the Journal of General Physiology paper<br> CARDIOMYOCYTE RYANODINE RECEPTOR CLUSTERS EXPAND AND COALESCE AFTER APPLICATION OF ISOPROTERENOL</p> <p>The data is in two parts: i) Blink data that records the positions of blinks collected from fluorescently labelled ryanodine receptors on the surface of rat ventricular myocytes. ii) Cluster data that records parameters from each of the clusters created by the blink data. </p> <p>The blink data was used to generate Figs. 1 to 4, S3 to S5, while cluster data was used to generate the tables<br> and Figs. 5 to 9. More detailed explanations of the data are in the files blinkinfo.html and clustinfo.html in their respective<br> directories.</p>
Early Detection of Cardiomyopathy by Speckle Echo, High Sensitive Troponin and Cardiac Ryanodine Receptors
ClinicalTrials.gov study NCT03381014. IPD Sharing: Not stated. Countries: 0. Publications: 2.
Data from: Effects of rogue ryanodine receptors on Ca2+ sparks in cardiac myocytes
Open the record for dataset details and reuse information.
Location of Ryanodine Receptor Type 2 Associated Catecholaminergic Polymorphic Ventricular Tachycardia Variants Dataset
<h1>Location of RYR2 Associated CPVT Variants Dataset</h1> <p>Catecholaminergic polymorphic ventricular tachycardia (CPVT) is a rare inherited arrhythmia caused by pathogenic RYR2 variants. CPVT is characterized by exercise/stress-induced syncope and cardiac arrest in the absence of resting ECG and structural cardiac abnormalities.</p> <p>Here, we present a database collected from <strong>221</strong> clinical papers, published from 2001-October 2020, about CPVT associated RYR2 variants. <strong>1342</strong> patients, both with and without CPVT, with RYR2 variants are in the database. There are a total of <strong>964</strong> CPVT patients or suspected CPVT patients in the database. The database includes information regarding genetic diagnosis, location of the RYR2 variant(s), clinical history and presentation, and treatment strategies for each patient. Patients will have a varying depth of information in each of the provided fields.</p> <p>Database website: <a href="https://cpvtdb.port5000.com/">https://cpvtdb.port5000.com/</a></p> <h2>Dataset Information</h2> <p>This dataset includes:</p> <ol> <li>all_data.xlsx <ul> <li>Tabular version of the database</li> <li>Most relevant tables in the PostgreSQL database regarding patient sex, conditions, treatments, family history, and variant information were joined to create this database</li> <li>Views calculating the affected RYR2 exons, domains and subdomains have been joined to patient information</li> <li>m-n tables for patient's conditions and treatments have been converted to pivot tables - every condition and treatment that has at least 1 person with that condition or treatment is a column.</li> <li>NOTE: This was created using a LEFT JOIN of individuals and individual_variants tables. Individuals with more than 1 recorded variant will be listed on multiple rows. <ul> <li>There is only 1 patient in this database with multiple recorded variants (all intronic)</li> </ul> </li> </ul> </li> <li>20241219-dd040736b518.sql.gz<br> <ul> <li>PostgreSQL database dump</li> <li>Expands to about 200MB after loading the database dump</li> <li>The database includes two schemas: <ul> <li>public: Includes all information in patients and variants <ul> <li>Also includes all RYR2 variants in ClinVar</li> </ul> </li> <li>uta: Contains the rows from biocommons/uta database required to make the hgvs Python package validate RYR2 variants<br> <ul> <li>See <a href="https://github.com/biocommons/uta" target="_blank" rel="noopener">https://github.com/biocommons/uta</a> for more information</li> </ul> </li> </ul> </li> <li>NOTE: It is recommended to use this version of the database only for development or analysis purposes</li> </ul> </li> <li>database_tables.pdf <ul> <li>Contains information on most of the database tables and columns in the <code>public</code> schema</li> </ul> </li> <li>00_globals.sql <ul> <li>Required to load the PostgreSQL database dump</li> </ul> </li> </ol> <h2>How To Load Database Using Docker</h2> <p>First, download the `00_globals.sql` and `<DATE>_<ALEMBIC_REVISION>.gz.sql` file and move it into a directory. The default postgres image will load files from the `/docker-entrypoint-initdb.d` directory if the database is empty. See <a href="https://hub.docker.com/_/postgres#:~:text=and%20POSTGRES_DB.-,Initialization%20scripts,-If%20you%20would" target="_blank" rel="noopener">Docker Hub</a> for more information. Mount the directory with the files into the `/docker-entrypoint-initdb.d`.</p> <p>Example using docker compose with pgadmin and a volume to persist the data.</p> <pre><code># Use postgres/example user/password credentials volumes: mydatabasevolume: null services: db: image: postgres:16 restart: always environment: POSTGRES_PASSWORD: mysecretpassword POSTGRES_USER: postgres volumes: - '<INSERT LOCATION OF DIRECTORY WITH DATABASE DUMP HERE>:/docker-entrypoint-initdb.d/' - 'mydatabasevolume:/var/lib/postgresql/data'<br> ports:<br> - 5432:5432 pgadmin: image: dpage/pgadmin4 environment: PGADMIN_DEFAULT_EMAIL: user@domain.com PGADMIN_DEFAULT_PASSWORD: SuperSecret<br> ports:<br> - 8080:80</code></pre> <h2>Analysis Code</h2> <p>See https://github.com/alexdaiii/cpvt_database_analysis for source code to create the xlsx file and analysis of the data.</p> <h2>Changelist</h2> <ul> <li>v0.3.0 <ul> <li>Removed inasscessable publications</li> <li>Updated publications tgo include information on what type of publication it is (e.g. Original Article, Abstract, Review, etc)</li> </ul> </li> <li> v0.2.1 <ul> <li>Updated all_patients.xlsx -> all_data.xlsx</li> <li>Corrected how the data from all the patient's conditions, diseases, treatments, and the patients' variants tables are joined</li> </ul> </li> </ul>
Enhancing calmodulin binding to cardiac ryanodine receptor completely inhibits pressure-overload induced hypertrophic signaling
GEO Series GSE158536. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing.
FoxP3-mediated blockage of ryanodine receptor 2 is the molecular basis for the contact-based suppression by regulatory T cells
GEO Series GSE237032. Mus musculus. 16 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Activation of endogenous protein phosphatase 1 enhances the calcium sensitivity of the ryanodine receptor type 2 in murine ventricular cardiomyocytes
<p>Each ZIP file contains the confocal or Western blot images (.tif, .oib, .oif) as well as voltage-clamp recordings (.pxp files - Igor, Wavemetrics). It also contains the analyses of the data used in that figure. Data are organised by dates (cell isolations) and by measured cells.</p>
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