September 21, 2009

A New miRNA Knowledgebase: miRò

Filed under: Bioinformatics — Biointelligence: Education,Training & Consultancy Services @ 1:59 am
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Post Transcriptional Gene Silencing (PTGS) is a highly conserved mechanism of gene expression regulation and microRNAs (miRNAs) are its main actors. These little RNA molecules are able to bind to specific sites located in the 3′ untranslated regions (UTRs) of target transcripts, inhibiting their translation or promoting their degradation. Although much effort has demonstrated their crucial role in several physiological and pathological processes, their mechanisms of action still remain unclear.

miRò is a web-based knowledge base that provides users with miRNA–phenotype associations in humans. It integrates data from various online sources, such as databases of miRNAs, ontologies, diseases and targets, into a unified database equipped with an intuitive and flexible query interface and data mining facilities. The main goal of miRò is the establishment of a knowledge base which allows non-trivial analysis through sophisticated mining techniques and the introduction of a new layer of associations between genes and phenotypes inferred based on miRNAs annotations. Furthermore, a specificity function applied to validated data highlights the most significant associations.
The miRò web site is available at:

August 11, 2009

EMBRACE – Active registry for bioinformatics web services

Filed under: Bioinformatics — Biointelligence: Education,Training & Consultancy Services @ 12:47 pm
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Web services’ have become important tools in bioinformatics, allowing databases and algorithms to be accessed programmatically as computational components in programs, workflows and interactive analysis tools. Although these services are becoming common, with an growing adoption of standard protocols and technologies, the mechanisms for collecting and publicizing them are less mature.
A number of mechanisms for finding services have emerged over recent years but they have various limitations.

The EMBRACE (A European Model for Bioinformatics Research and Community Education) Network of Excellence has produced a web service registry that attempts to tackle the limitations and drawbacks of the already existing systems.The EMBRACE Service Registry is a collection of life-science web services with built-in service testing.

The EMBRACE registry is a collection of life-science web services originating from the EMBRACE Network of Excellence. As a potential user of these, you can search the registry for services that match your needs, and find example client software to help you use them in your own programs or workflows. The registry periodically monitors the status and behaviour of the registered services, collating and logging this information so that you can see how reliable services are, and whether they are currently functioning as the service providers expect them to.

To access EMBRACE click on the following link –