Web Service DIANA-labs microRNA server (miRNA server: microT, miRPath, TarBase) REST Ir

aka miRPath miRNA functional analysis on KEGG pathways aka TarBase miRNA-gene interaction database aka DIANA-microT-ANN aka Computational Prediction of microRNA (miRNA) Targets with DIANA-microT v4 Add_annotation_inactiveAdd_annotation_inactiveLog in to add alternative_name
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DIANA-lab, BSRC "Al. Fleming"Gr (over 4 years ago)

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by DIANA-lab, BSRC "Al. Fleming" (over 4 years ago)

This REST service can access the DIANA-labs microRNA (miRNA) web server. It provides access to the following databases/servers: DIANA-microT v4 (microT-ANN): computational miRNA-gene interaction prediction using artificail neural networks DIANA-microT v5 (microT-CDS): computational miRNA-gene interaction prediction in 3-UTR and CDS transcript regions. DIANA-TarBase v2.0: the largest available database hosting experimentally validated miRNA-gene itneractions. DIANA-miRPAth v2.1: miRNA functional analysis and identification of pathways targeted my miRNAs microT v4: This REST service can access the DIANA-microT-ANN (v4) web server and identify microRNAs (miRNAs) predicted to target selected genes OR gene targets of selected miRNAs. The user can add 1 or more miRNAs AND/OR 1 or more genes. The base case is the selection of only one miRNA OR only one gene. In this case, the server identifies all targeted genes by the selected miRNA or all the miRNAs predicted to target the selected gene. This case is extended by adding more miRNAs or genes. If the user specifies miRNAs and genes of interest, the server will identify which of the selected genes are targeted by the selected miRNAs. Parameterization The user can specify: Genes and miRNAs belonging to Homo sapiens (human), Mus musculus (mouse), Caenorhabditis elegans - C. elegans (nematode / roundworm), Drosophila melanogaster (common fruit fly). Prediction threshold: A cut off value for presented predictions, ranging from 0.3 to 1. Homo sapiens: The suggested thresholds are: 0.7 (sensitive analysis), 0.8 (default), 0.9 (stringent) Mus musculus: The suggested threshold are: 0.6 (sensitive analysis), 0.7 (default), 0.8 (stringent) Usage miRNAs are added after the base URL, using miRNAs= and the selected miRNAs are divided by space. Valid names are miRBase 18+ nomenclature miRNA names and/or MIMAT ids (miRBase mature miRNA ids). Example: mirnas=dme-let-7-5p dme-let-7-3p For genes, the selector is genes= and ENSEMBL gene ids devided by space can be used to specify selected miRNAs. Example: genes=FBgn0086758 FBgn0259750 Threshold The score cut-off value is selected by using the threshold identifier. Example: threshold=0.7 DIANA-microT-CDS (v5) DIANA-microT-CDS service follows the exact syntax as DIANA-microT v4, with the exception that only ENSEMBL ids can be used for miRNAs. Apart from that, the syntax is quite straightforward. Example: DIANA-TarBase This is a REST service to query directly DIANA-TarBase v6.0 the largest available database indexing manually curated experimentaly validated miRNA-gene interactions. The user can query using a gene name / ENSEMBL gene ID (preferred) OR miRNA name (miRBase 18+ nomenclature) / MIMAT ID. Only one miRNA OR gene can be queried at a time. Ex.

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by DIANA-lab, BSRC "Al. Fleming" (over 4 years ago)

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