Posts Tagged ‘bioinformatics’

Computational biologist for SIROCCO consortium

We are looking for a computational biologist to work with a team of software developers, bioinformaticians and statisticians on a variety of tasks related to the data management infrastructure for the SIROCCO consortium (http://www.sirocco-project.eu/) in the Functional Genomics group at the EBI.
The data manager will play a key role in dialoguing between software engineers and users of our data management system and ensuring successful delivery of a multi-module IT system to the consortium.
The main responsibilities will include:
• establishing and maintaining a multi-component system for data exchange and collaborative analysis within the project;
• analysis of technical requirements for software customization;
• design of standard operating procedures for data annotation and management;
• user training and support.
The post holder is also expected to contribute to software development activities.
The EBI, part of the European Molecular Biology Laboratory (EMBL), is a world-leading bioinformatics centre providing biological data to the scientific community with expertise in data storage, analysis and representation. The Functional Genomics Group at the EBI is coordinating the informatics for a number of collaborative European projects in epidemiology and molecular biology. We contribute to those projects by providing data collection, validation, storage and integration infrastructure. 

http://www.embl.de/aboutus/jobs/searchjobs/index.php?newms=jj&id=40162&newlang=1


MapMi: automated mapping of microRNA loci.

Guerra-Assunção JA, Enright AJ MapMi: automated mapping of microRNA loci. BMC Bioinformatics. 2010 Mar 16;11:133.

MapMi is a tool designed to locate miRNA precursor sequences in existing genomic sequences (e.g Ensembl and Ensembl Metazoa), using potential mature miRNA sequences as input.

After searching the genome for the provided mature sequences, these hits are extended and classified taking into account major structural properties of known miRNA precursors.

MapMi uses Bowtie and RNAfold third-party tools. Please check their websites for more details.
For more informations about the methods behind MapMi, please check the references section