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First Multiscale Complex Genomics newsletter.
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MuG latest developments in a nutshell...

First of all, thank you for your continued interest in MuG and welcome to the second edition of our Newsletter containing the latest developments of the Multiscale complex Genomics project.

During the first 10 months of the project our consortium has been busy characterizing users' needs and identifying analysis tools fitted to those needs. The first prototype of the MuG VRE infrastructure is already online and ready to be tested by our pilot projects. Meanwhile, we would like to invite computational biologists, experimental biologists, developers, industry members and anyone interested in the MuG VRE to have their say by joining the MuG community.


The MuG Community 

By joining the MuG community, members will be included in the general MuG Interest Group. As new features of the VRE become available in the coming months, the community will be segmented and members will be invited to join specific interest groups and will contribute to shape the MuG VRE based on real community needs. 

Join the  MuG community list

First prototype of the MuG VRE 

http://www.multiscalegenomics.eu/MuGVRE/
A Virtual Research Environment should allow the researcher to analyze data, either from repositories or obtained from experiment or simulation; combine and compare such analysis results with related studies, and reference data, and provide access in a friendly manner.
The initial version of the MuG VRE provides a cloud-based environment able to perform a series of operations packed as virtual machines, and several interfaces of access, including specific web portals, and programmatic access.
MuG computational infrastructure has been designed to fulfil the following principles:

  1. Flexible environment, able to adapt to the specific needs of analysis tools, both in terms of software requirements, or computational resources.
  2. Software scheduler, able to manage analysis workflows in a transparent and adaptable manner.
  3. Multi-scale execution. Analysis workflows could be executed either at the cluster level, in HPC environments, or distributed infrastructures like EGI.
  4. Data repository, with a flexible infrastructure, and fully compatible with other repositories.
  5. Web-based access centered in the MuG multi-scale browser.

 

Publications

The first works developed by the different partners in the framework of the MuG project have been published recently:

Recent events

MuG partners have been busy promoting the project across Europe…and beyond! International events that have seen contributions by MuG partners include:

  • Giacomo Cavalli was an invited speaker and Chairman for one of the sessions at the March 2016 Keystone meeting on Chromatin and Epigenetics.
  • Charlie Laughton presented the presented the challenges of the 3D/4D genomics community and the vision of the MuG VRE to the attendees at the conference “Big Data in Biomolecular Systems” conference that took place at the School of Pharmacy, UCL, London on Friday 9th September.
  • The Dynamics of genome structure meeting organized by the 4D Genome ERC Synergy Project, of which Marc Martí-Renom is co-PI, brought together experimental and computational experts on eukaryotic genome architecture, with an emphasis in the generation, computational analysis and visualization of population interaction maps generated with 3C-derived methods, in high-resolution microscopic methods for the analysis of single cell genomes and in modelling based on polymer physics. The event provided a unique opportunity for MuG to reach the most prominent researchers in the 3D/4D genomics community.
  • MuG has been strongly represented by members of BSC and IRB Barcelona at relevant events in the field of bioinformatics and computational biology, including the Spanish XIII Symposium on Bioinformatics (JBI2016) and the 15th European conference on computational biology (ECCB 2016), the big European computational biology event that brings together scientists working in bioinformatics, computational biology, biology, medicine, and systems biology.
  • Mike Goodstadt, leader of the work package dealing with visualization of 3D genomes, has attended some of the most important events worldwide on the field of graphics for 3D visualization, including VIZBI2016 “Visualizing biological data” in Heidelberg (Germany) and the Shonan Meeting “Web-based Molecular Graphics” in Tokyo, Japan.

Upcoming events

As September is about to end, MuG is going to be strongly featured at a number of dissemination and training events.

Stay tuned! 

 

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