This international workshop will be held at the European Bioinformatics Institute (EBI) at Hinxton, UK, as part of the INFRAVEC transnational access activities. The goal of the workshop is to offer a training and data analysis opportunity to external researchers and research teams applying via the INFRAVEC Access funding programme. The workshop will focus on the use of computational techniques for the exploration of vector genomics, especially programmatic access to data through VectorBase and analyses using high-throughput datasets including alignment of RNAseq or genome re-sequencing and subsequent measures of gene expression or variation respectively. This two-day course will be delivered using a mixture of lectures, hands-on practical sessions and an interactive session where users can discuss practical exercises with the trainers and fellow attendees. The trainers will be experienced vector bioinfomaticians and biologists from EBI and elsewhere.
Day 1 consists of a morning of introduction and summary talks with a guest lecture about the use of high-throughput genomic data sets in vector biology and then a walk through with exercises explaining programmatic access to VectorBase data using the Ensembl Application Programming Interface (API). Finally participants will initiate alignment of NGS dataset to a reference genome within the Galaxy platform
Day 2 explores builds on the aligned NGS data from Day 1 including the visualisation of the alignments and some simple analyses to get FPKM expression values for genes (to identify differential expression) and looking at calling variations (SNP detection). The session will end with discussion on how to improve data at VectorBase (community annotation efforts) and outreach activities (where to get help, what to expect from INFRAVEC/VectorBase).
Proposals will be evaluated by the Workshop Scientific Committee before participation is granted and participants will be notified regarding acceptance by 20th December 2013. A £100 non-refundable registration fee is charged to successful applicants and must be paid within 15 days from receiving notification to EMBL-EBI (payment instructions will be sent to successfull applicants).
The funding provided by INFRAVEC includes: participation to the workshop, course material, food and accommodation (max stay: 2 nights) for the length of the workshop. No cash funding is offered. The registration fee is not covered by the INFRAVEC funding. Further details are available on www.infravec.eu