STATseq TRAINING SCHOOL ON “Functional Annotation of Genome Sequences in Agricultural Species”

The COST Action STATSeq is organising a Training School 24 – 26 April 2013 in Helsinki, Finland

Organizers
Miguel Perez-Enciso (ES)
Petri Auvinen (FI)

Instructors
Fiona McCarthy
Ana Conesa

Course Content
1. Introduction to gene ontology and functional annotation
2. Sources of GO data and it’s impact on functional modeling
3. Computational de novo annotation
4. Blast2GO tool
5. Strategies for modeling functional genomics datasets

Requirements
Students should bring their own laptop with blast2go tool installed!

Application to Course
1. There is no registration fee
2. Attendance is limited to 30 trainees (students)
3. Applications should include a single pdf containing a one page letter of motivation explaining current research project and brief CV.
4. Applications should be sent by email to Miguel Perez-Enciso ( email) and Petri Auvine ( email)
5. Priority will be given to PhD students and postdocs having finished their PhD no later than 2 years ago.
6. Among criteria of acceptance, we will balance gender and geographic origin.
7. Applications after 22 February 2013 will be treated in consecutive order, until the maximum is reached.

Financial Support of Trainees
a. Ten Travel Grants (800euro each) are available from COST Action TD0801 (StatSeq)
b. Please state in your application whether you apply for a Travel Grant.
c. Students with residence in Finland can not apply for Travel Grants.
c. Deadline for application for Travel Grant is 22 February 2013
d. Notification of approved Travel Grants is 04 March 2013

Practicalities
A. Venue: University of Helsinki, Biocenter 2 (Biokeskus 2), Viikki campus (Viikin kampus), Street address: Viikinkaari 3
B. Transportation: from railway station take bus 68. There are other choices but start with this. If you need/ want to plan more your self use Reittiopas (routeguide) you can use it in planning your route in Capital area. It holds all busses, trams and metro.

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SeqAhead Conference: “The Next NGS Challenge”

opcion primera14 – 16 May 2013, Principe Felipe Research Center, Valencia, Spain

The Next NGS Challenge Conference is a joint event of the EU COST Action SeqAhead, the EMBnet, the International Society of Computational Biology ISCB and the 7FP Project STATegra that aims to become a dedicated meeting on cutting-edge Next Generation Sequencing applications, presenting the most innovative bioinformatics approaches in NGS data analysis.

The Conference will consist of keynote lectures, contributed oral presentations and lively afternoon Poster sessions. The organizers are now accepting submissions on novel NGS applications, algorithms for NGS date processing and integration, and effective solutions for the management of massive sequence data.

Deadline for registration is the 15th of April. Abstract submission deadline is the 15th of February. 

We are proud to announce the participation of the following Keynote speakers:

Ivo Gut, Director of the National Center of Analysis Genomic, Spain.
Janet Kelso, Professor at Max Planck Institute for Evolutionary Anthropology, Germany.
Leif Andersson, Professor in Functional Genomics at Uppsala University, Sweden.

The Conference will be preceded by the EMBnet Workshop on NGS data analysis on 14th May:

  • Morning session: “RNA-seq and ChIP-seq data analysis” by Endre Barta (U. of Debrecen,Hungary) and Eija Korpelainen (CSC Institute, Finland)
  • Afternoon session: ” NGS and structural Biology” by Goran Neshich (EMBRAPA, Brazil), Jose R. Valverde (CNB-CSIC, Spain) and Gert Vriend (CMBI, The Netherlands).

You can find further information at the Conference site: http://www.thenextngschallenge.org/.

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Hello everybody! First of all we would like to wish you an happy 2013!

We are sorry for the silence of this space in the latest weeks. This was due to some technical problem with our choosen CMS and it’s ability to serve well both the italian audience (the main target of this space) and the international one, which we hope to involve more in our activities. If you have any kind of issue with the updated wedsite you’re invited to use the form on the CONTACTS page. Thanks!

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SeqAhead Workshop on “High-throughput Omics & Data integration”

SeqAhead and the recently started European FP7 Project STATegra have joined forces to organize the ‘High-Throughput Omics & Data-Integration Workshop from the 13th to 15th of February 2013 in Barcelona, Spain.

The workshop aims in its first part to review the basics of most relevant omic data types and methodologies for data analysis. In a second part specific examples of data-integration challenges and success stories will be extensively presented and at the end researchers using NGS technology will present and describe tools developed for data integration.

The workshop is hosted at the Institut d’Investigacio Biomedica de Bellvitge very close to the Barcelona airport.

Both, researchers involved in the analysis of heterogeneous data-sets and method developers are welcome to apply for the workshop. The event will  serve as a tutorial, a learning experience and most important as well as a place to share ideas, needs and concerns about data-integration.

Information is available at the workshop-site http://www.seqahead.it/cost-bcn-2013/. Sponsorships for the possibility to present your work is available for two very promising researchers. Deadline for submission and abstract submission is 31.December 2012.

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Second COST Training School on Next Generation Sequencing

10 – 14 December 2012
Wageningen, the Netherlands

The European Research Group EADGENE_S , together with the COST Actions StatSeq (TD0801) and SeqAhead (BM1006) are organizing a Training School on the analysis of Next Generation Sequence data. Details on the course, including REGISTRATION, and how to apply for a TRAVEL GRANT (maximum 1000 Euro per grant) from the COST Actions can be found on this website: http://www.basgen.nl/sdac/

Aim of the Training School: The course is focused on learning to analyse sequencing data by applying the state of the art methods to REAL DATASETS. Data analysis EXERCISES will be carried out by participants in a VIRTUAL SERVER ENVIRONMENT.

Throughout the course the aim will be to learn useful approaches and strategies for analysing your data, to learn about the important algorithms and their software implementations, and to learn how to use scripting language(s) to connect different available software tools to construct a data analysis pipeline.

Instructors

  • Christoph Klopp, INRA – Toulouse, France ,
  • Mick Watson, The Roslin Institute – Edinburgh, United Kingdom ,
  • Hendrik-Jan Megens, Wageningen University – Wageningen, the Netherlands.

The course will be held on the Wageningen Campus, in Wageningen, the Netherlands, from December 10th until the 14th 2012.

Target audience

The course is designed for PhD students and postdoctoral fellows working with high volume next generation sequence data. Participants are expected to be familiar with sequence data and general genomics concepts. Although an introduction to working with sequence data in the Linux environment is part of the course, participants should prepare by learning the basic Linux skills if they do not already have them.

The aim of the course is to teach methods, algorithms and strategies that allow participants to turn next generation sequence data into biologically relevant information such as sequence variants and expression levels. Some examples of downstream analyses that makes use of this data will be included. A combination of lectures and exercises will allow participants to get a feeling of both theory and practical application.

 NOTE

Deadline to apply for a travel grant is October 31st 2012. Application is not difficult but you do need to meet the requirements and send in your application.

See the registration and application form which can be downloaded at the course website: http://www.basgen.nl/sdac/

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