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UID:493@biocityturku.fi
DTSTART;TZID=Europe/Helsinki:20181026T090000
DTEND;TZID=Europe/Helsinki:20181026T170000
DTSTAMP:20231013T063552Z
URL:https://biocityturku.fi/events/complifesci-event-ensembl-browser-works
 hop/
SUMMARY:CompLifeSci event: Ensembl browser workshop
DESCRIPTION:Dr Astrid Gall\, Ensembl Outreach Officer\, European Molecular 
 Biology Laboratory - European Bioinformatics Institute (EMBL-EBI)\n\nOrgan
 iser: EMBL-EBI\, CompLifeSci research programme and Biocity Turku\n\nCompL
 ifeSci course page: https://biocityturku.fi/research-programmes/computatio
 nal-and-molecular-methodologies-for-life-sciences-complifesci/courses-and-
 other-events/\n\nLink to registration: https://link.webropolsurveys.com/S/
 7D873F34AB7BC121\n\nSeating is limited to 30 participants.\n\nThe Ensembl 
 project (www.ensembl.org) provides a comprehensive and integrated source o
 f annotation of mainly vertebrate genome sequences. This 1-day workshop of
 fers participants the possibility of gaining hands-on experience in the us
 e of the Ensembl genome browser but also provides them with the necessary 
 background information. Our sister project (www.ensemblgenomes.org) can al
 so be covered if participants are working with bacteria\, plants\, fungi\,
  protists or (invertebrate) metazoa.\nThe workshop is primarily targeted a
 t wetlab researchers\, and we customise the course for species of interest
  and to include total beginners of our browser as well as frequent users.\
 n\nProgramme\n\nThe workshop consists of a series of modules\, listed belo
 w. All modules include a presentation and a demonstration of the tools\, f
 ollowed by exercises. Participants are encouraged to bring problems/questi
 ons about their research\, and we will try to tackle these during the work
 shop.\n\n 	Introduction to Ensembl: origin\, goals and organisation of the
  Ensembl project\n 	Genebuild: how are Ensembl gene and transcripts predic
 tions made?\n 	Comparative genomics and proteomics: orthologues\, protein 
 families\, whole genome alignments and syntenic regions\n 	Variation: SNPs
  and other polymorphisms\, haplotypes\, linkage disequilibrium\, structura
 l variants like CNVs\, the Variant Effect Predictor (VEP) tool\n 	Regulati
 on: Sequences that may be involved in gene regulation\, and integration of
  ENCODE data\n 	Data export with BioMart: retrieving genomic information u
 sing a web interface (no programming required).\n\nThe workshop consists o
 f the first three modules\, plus two other modules. The two additional mod
 ules depend on what participants express an interest in when they register
 .\n\nPrerequisites\nThe only prerequisite is a general knowledge of molecu
 lar biology and genomics and a familiarity with web browsers.\n\nLearning 
 outcomes\nParticipants should be able to:\n\n 	view genomic regions and ma
 nipulate the view to add features they are interested in\n 	explore inform
 ation about genes\, their sequences and other data in bulk using BioMart\n
  	analyse genomic variants and associated phenotypes and their own variati
 on data using the VEP\n 	view homologous genes and genomic regions\, funct
 ional elements involved in gene regulation and their activity in different
  cell types.\n\nThe workshop includes two coffee breaks and a lunch\, cour
 tesy of the CompLifeSci research programme.\n\nFor more information\, plea
 se contact miina.nurmi@utu.fi
CATEGORIES:BiocityTurku events
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