Ensembl Tutorial

January 11, 2018
8:30 am – 4:30 pm

UC San Diego School of Medicine
Medical Education & Telemedicine Bldg, Room 141

(9500 Gilman Drive, La Jolla, CA)

Hosted by Helen Sparrow, Ensembl Outreach Officer European Bioinformatics Institute (EMBL-EBI). This full-day workshop will provide an introduction to Ensembl (www.ensembl.org), a freely available comprehensive and integrated genomic resource. Ensembl currently has over 80 vertebrate species available, including human genomes, whether in its latest assembly (GRCh38) or the previous ones (GRCh37 and NCBI36). Our sister project, Ensembl Genomes, contains an additional 40,000 bacterial, plant, fungal, protist and metazoan genomes.

Ensembl annotates genes and transcripts based on biological evidence, generates gene trees (both protein coding and non-coding) and whole genome alignments. To annotate other genomic features such as SNPs, CNVs and regulatory elements, Ensembl draws on major biological projects including 1000 Genomes, ENCODE, Roadmap Epigenomics and Blueprint epigenome. We also integrate data from many reference databases such as dbSNP, the NHGRI-EBI GWAS catalogue and OMIM. These data can be accessed through our web browser, APIs (Perl and REST), MySQL and FTP dumps, and our toolkit (e.g., our popular VEP, BioMart, BLAST/BLAT).

Registration opens winter 2017.