name: miRTarBase
description: miRTarBase is a comprehensive database of experimentally validated microRNA-target interactions (MTIs). It collects and curates miRNA-target interactions with experimental evidence from the literature, including data from reporter assays, western blot, qPCR, microarray, and high-throughput experiments such as CLIP-Seq.
contacts: []
products: [{"category": "GraphicalInterface", "description": "Web interface for searching and browsing experimentally validated microRNA-target interactions across multiple species.", "format": "http", "id": "mirtarbase.portal", "name": "miRTarBase Web Portal", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/index.php"}, {"category": "Product", "description": "Complete dataset of microRNA-target interactions (MTI) in CSV format containing all experimentally validated interactions.", "format": "csv", "id": "mirtarbase.mti", "name": "miRTarBase Complete MTI Dataset", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Dataset of microRNA target sites with detailed binding site information in CSV format.", "format": "csv", "id": "mirtarbase.target_sites", "name": "miRTarBase Target Sites Dataset", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ Timeout connecting to URL", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Species-specific microRNA-target interaction datasets in CSV format for human, mouse, rat, and 25+ other species.", "format": "csv", "id": "mirtarbase.species_mti", "name": "miRTarBase Species-Specific MTI Files", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ Timeout connecting to URL", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Curated datasets filtered for strong experimental evidence including reporter assays, western blot, qPCR, and CLIP-Seq data.", "format": "csv", "id": "mirtarbase.strong_evidence", "name": "miRTarBase Strong Evidence Datasets", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Archive of previous miRTarBase releases for reproducibility and historical comparisons.", "format": "http", "id": "mirtarbase.archive", "name": "miRTarBase Previous Releases Archive", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"description": "The MechRepoNet knowledge graph in its original format", "id": "mechreponet.kg", "name": "MechRepoNet Knowledge Graph", "original_source": ["ctd", "doid", "go", "chebi", "reactome", "interpro", "hp", "cl", "pr", "uberon", "ncbitaxon", "hetionet", "complexportal", "rnacentral", "mirtarbase", "unii", "biolink"], "product_url": "https://github.com/SuLab/MechRepoNet/releases/tag/publication", "secondary_source": ["mechreponet"]}]
raw_data: {"activity_status": "active", "category": "DataSource", "creation_date": "2025-07-17T00:00:00Z", "description": "miRTarBase is a comprehensive database of experimentally validated microRNA-target interactions (MTIs). It collects and curates miRNA-target interactions with experimental evidence from the literature, including data from reporter assays, western blot, qPCR, microarray, and high-throughput experiments such as CLIP-Seq.", "domains": ["genomics", "biological systems"], "id": "mirtarbase", "last_modified_date": "2025-10-15T00:00:00Z", "layout": "resource_detail", "name": "miRTarBase", "products": [{"category": "GraphicalInterface", "description": "Web interface for searching and browsing experimentally validated microRNA-target interactions across multiple species.", "format": "http", "id": "mirtarbase.portal", "name": "miRTarBase Web Portal", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/index.php"}, {"category": "Product", "description": "Complete dataset of microRNA-target interactions (MTI) in CSV format containing all experimentally validated interactions.", "format": "csv", "id": "mirtarbase.mti", "name": "miRTarBase Complete MTI Dataset", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Dataset of microRNA target sites with detailed binding site information in CSV format.", "format": "csv", "id": "mirtarbase.target_sites", "name": "miRTarBase Target Sites Dataset", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ Timeout connecting to URL", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Species-specific microRNA-target interaction datasets in CSV format for human, mouse, rat, and 25+ other species.", "format": "csv", "id": "mirtarbase.species_mti", "name": "miRTarBase Species-Specific MTI Files", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ Timeout connecting to URL", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Curated datasets filtered for strong experimental evidence including reporter assays, western blot, qPCR, and CLIP-Seq data.", "format": "csv", "id": "mirtarbase.strong_evidence", "name": "miRTarBase Strong Evidence Datasets", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"category": "Product", "description": "Archive of previous miRTarBase releases for reproducibility and historical comparisons.", "format": "http", "id": "mirtarbase.archive", "name": "miRTarBase Previous Releases Archive", "product_url": "https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2025/php/download.php", "warnings": ["File was not able to be retrieved when checked on 2025-10-21_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ HTTP 403 error when accessing file", "File was not able to be retrieved when checked on 2025-10-15_ Error connecting to URL_ HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443)_ Max retries exceeded with url_ /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL_ SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c_1017)')))", "File was not able to be retrieved when checked on 2025-10-21: Error connecting to URL: HTTPSConnectionPool(host='mirtarbase.cuhk.edu.cn', port=443): Max retries exceeded with url: /~miRTarBase/miRTarBase_2025/php/download.php (Caused by SSLError(SSLError(1, '[SSL: SSLV3_ALERT_HANDSHAKE_FAILURE] sslv3 alert handshake failure (_ssl.c:1017)')))"]}, {"description": "The MechRepoNet knowledge graph in its original format", "id": "mechreponet.kg", "name": "MechRepoNet Knowledge Graph", "original_source": ["ctd", "doid", "go", "chebi", "reactome", "interpro", "hp", "cl", "pr", "uberon", "ncbitaxon", "hetionet", "complexportal", "rnacentral", "mirtarbase", "unii", "biolink"], "product_url": "https://github.com/SuLab/MechRepoNet/releases/tag/publication", "secondary_source": ["mechreponet"]}], "publications": [{"authors": ["Cui S", "Yu S", "Huang HY", "Lin YCD", "Huang Y", "Zhang B", "Xiao J", "Zuo H", "Wang J", "Li Z"], "id": "https://doi.org/10.1093/nar/gkae1072", "journal": "Nucleic Acids Research", "preferred": true, "title": "miRTarBase 2025: updates to the collection of experimentally validated microRNA-target interactions", "year": "2024"}, {"authors": ["Huang HY", "Lin YCD", "Cui S", "Huang Y", "Tang Y", "Xu J", "Bao J", "Li Y", "Wen J", "Zuo H"], "id": "https://doi.org/10.1093/nar/gkab1079", "journal": "Nucleic Acids Research", "preferred": false, "title": "miRTarBase update 2022: an informative resource for experimentally validated miRNA-target interactions", "year": "2022"}]}