The DIANA-microT web server v5.0 is a tool for miRNA target prediction and functional analysis. It has been significantly enhanced with an improved target prediction algorithm, DIANA-microT-CDS, which can identify miRNA targets in both 3'UTR and CDS regions. The server has been updated to incorporate miRBase version 18 and Ensembl version 69, and it supports a wide range of miRNA-gene interactions across multiple species. The web server has been completely redesigned to host sophisticated workflows that can be used directly from the online interface, enabling users without bioinformatics infrastructure to perform advanced multi-step functional miRNA analyses. One available pipeline performs miRNA target prediction using different thresholds and meta-analysis statistics, followed by pathway enrichment analysis. The server also supports integration with the Taverna Workflow Management System (WMS) using the in-house developed DIANA-Taverna Plug-in, which provides ready-to-use modules for miRNA target prediction and functional analysis. The new version of the server focuses on advanced users and laboratories requiring support for sophisticated pipelines, providing programmatic access to services of multiple DIANA algorithms and complete integration with Taverna WMS. The server also hosts ready-made advanced workflows that can perform extensive miRNA-related analyses on results derived from high-throughput techniques. The DIANA-microT web server v5.0 aims to facilitate users in creating novel or enhancing existing pipelines with miRNA target identification and functional analysis tools. It provides a complete integration with Taverna WMS, enabling users to access the target prediction server directly from the graphic interface of Taverna and incorporate advanced miRNA analysis functionalities into custom pipelines. The server also supports direct programmatic access to all aforementioned utilities in the form of services, facilitating users who have already implemented pipelines using scripting or programming languages. The new DIANA-microT web server aims to further increase the target prediction accuracy and usability of the server interface, while facilitating users aiming to perform complex miRNA-related analyses.The DIANA-microT web server v5.0 is a tool for miRNA target prediction and functional analysis. It has been significantly enhanced with an improved target prediction algorithm, DIANA-microT-CDS, which can identify miRNA targets in both 3'UTR and CDS regions. The server has been updated to incorporate miRBase version 18 and Ensembl version 69, and it supports a wide range of miRNA-gene interactions across multiple species. The web server has been completely redesigned to host sophisticated workflows that can be used directly from the online interface, enabling users without bioinformatics infrastructure to perform advanced multi-step functional miRNA analyses. One available pipeline performs miRNA target prediction using different thresholds and meta-analysis statistics, followed by pathway enrichment analysis. The server also supports integration with the Taverna Workflow Management System (WMS) using the in-house developed DIANA-Taverna Plug-in, which provides ready-to-use modules for miRNA target prediction and functional analysis. The new version of the server focuses on advanced users and laboratories requiring support for sophisticated pipelines, providing programmatic access to services of multiple DIANA algorithms and complete integration with Taverna WMS. The server also hosts ready-made advanced workflows that can perform extensive miRNA-related analyses on results derived from high-throughput techniques. The DIANA-microT web server v5.0 aims to facilitate users in creating novel or enhancing existing pipelines with miRNA target identification and functional analysis tools. It provides a complete integration with Taverna WMS, enabling users to access the target prediction server directly from the graphic interface of Taverna and incorporate advanced miRNA analysis functionalities into custom pipelines. The server also supports direct programmatic access to all aforementioned utilities in the form of services, facilitating users who have already implemented pipelines using scripting or programming languages. The new DIANA-microT web server aims to further increase the target prediction accuracy and usability of the server interface, while facilitating users aiming to perform complex miRNA-related analyses.