Bioinformatics news

EMBnet 2011 AGM in Portugal

Sun, 29 May 2011 15:59:54 +0200

In 2011, the events surrounding the AGM primarily involved active work groups, the aim was to define lines of collaboration and sharing of resources, and produced outputs from which all nodes will benefit directly. The programme commenced with a Mini-Symposium on Monday morning, and was followed by four Working Group Sessions during the next 2 days. The final day included parallel sessions (Tutorials and Discussions), and were followed by a short AGM. A more detailed report will be published as a supplement of EMBnet.journal.

EMbnet.journal issue 16.1 is out!

Wed, 12 Jan 2011 14:11:04 +0100

The inaugural issue of EMBnet.journal: bioinformatics in action is out. This first issue marks the complete transition from EMBnet.News, an online magazine produced by the EMBnet community since 1994.

This new online journal will comprise two main parts: one part will focus on peer-reviewed primary research articles, reviews and technical notes and the other part will contain useful information and resources including commentaries, user-guides, training information and news.

We are now accepting manuscripts for review and publication and look forward to receiving your contributions and feedback. Submit your articles at:http://journal.embnet.org/index.php/embnetjournal/information/authors

http://www.embnet.org/en/NGS-AGM2010/ConferenceProgramme

Wed, 16 Jun 2010 14:38:57 +0200

Workshop organised by the EMBRACE (EU FP6 NoE), in connection with the EMBnet AGM 2010.

The event is sponsored by the Apulia Regional Council under a EU initiative financed by EU funds - POR Puglia 2000/2006 (http://www.viaggiareinpuglia.it/aptbari) and EMBRACE (http://www.embracegrid.info/).
This workshop is a continuation of the previous workshop in Rome (see link below). It is aimed at bioinformaticians interested in discussing issues related to the management of platforms and analysis of next-generation sequencing data.
The workshop will include lectures by experts from relevant fields and corresponding practical sessions. Topics covered will include storage facilities for sequencing raw data, tools for genome mapping of sequence reads, sequence reads assembly, contig and scaffold generation, gene calling of mapped reads for digital analysis of gene expression, identification of structural genome variants by using long paired-end sequencing and tools for genome annotation.
The workshop will start June 16th at 10:00 A.M. with a list of presentations on the topics such as de novo sequencing: analysis strategies, reference supported sequence assembly; re-sequencing: mapping and detection of variability; RNA-seq and digital gene-expression profiling, ChIP -seq, epigenetics, metagenomics, small RNA sequencing and genome annotation.

The second day (June 17th) will be dedicated to an extensive hack-a-thon session with real data analysis of some of the above mentioned topic.
The hack-a-thon will use the computer facility of the National Institute of Nuclear Physics (INFN, http://www.ba.infn.it/) in Bari.

EMBnet´s AGM will take place on June 18th

There is no registration fee. The costs for the EMBnet members are covered by the Apulia Regional Council and EMBnet. Other participants have to cover only their travel and accommodation, the rest will be sponsored by EMBRACE and Apulia Regional Council.

Kalkyl inaguration

Wed, 24 Mar 2010 06:50:03 +0100

Start 25 March 2010 at 13:30 Place: Polhemsalen, Ångströmlaboratoriet Word of Welcome: Information on UPPMAX, UPPNEX and Kalkyl Ingela Nyström, Director of UPPMAX
Publicity in Nature: Whole Genome Resequencing Reveals Signatures of Selection in Domestic Animals Professor Leif Andersson, Dept. of Medical Biochemistry and Microbiology, UU and Dept. of Animal Breeding and Genetics, SLU
Panasas Large-Scale Parallel Storage Systems Terry Rush, PANASAS, Regional Sales Manager, Northern Europe
Trends and Challenges in High Performance Computing Peter Noring, BU Manager Industry Standard Server, Hewlett-Packard Sverige AB
Inauguration: UPPMAX in the Context of the Development of the University Ann Fust, Uppsala University Director
Coffee and Cake - Kaffe & tårta
Presentations by UU test users:
Parallelization of Path Integral Molecular Dynamics using Tuned MPI Alltoall Collectives Daniel Spångberg, UPPMAX application expert on Molecular Dynamics and Dept. of Materials Chemistry
Linear Scaling Quantum Chemistry Calculations Benchmarked using the Large-Memory Nodes of the new Kalkyl Cluster Elias Rudberg, UPPMAX application expert on Algorithm and Code Development and Dept. of Information Technology
Computational Design of a Fe/Co Fibonacci Superlattice using VASP Biplab Sanyal, UPPMAX application expert on Theoretical Material Physics  and Dept. of Physics and Astronomy
Scalable Quantum Dynamics Simulations on Kalkyl Magnus Gustafsson, Dept. of Information Technology
Challenges for the Future with Next-Generation Sequencing Data Storage and Analysis Matthew Webster, Dept. of Medical Biochemistry and Microbiology
- 16:30
Closing Words Questions and Answers on UPPMAX systems UPPMAX staff

International Conference & Meetings EMBnet-RIBio 2009

Tue, 27 Oct 2009 19:23:38 +0100

"Bioinformatics for High Throughput Technologies and the Interface of Bioinformatics and Systems Biology"

EMBnet Annual General Meeting RIBio Annual General Meeting
 Paradisus Riviera Cancun Resort, Puerto Morelos (Mayan Riviera), Quintana Roo, Mexico

Info and pictures will be up soon!