Skate Genome Sequence Annotation Workshops

A Series of three Workshops will be held to annotate the skate genome.

• May 24-28, 2010 at University of Delaware
• October 12-15, 2010 at Mount Desert Island Biological Laboratory
• May 2011 at University of Delaware

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Additional workshop information can be found at the skatebase.org website:
http://skatebase.org/workshops

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Third Skate Genome Sequence Annotation Workshop
Date: May 23-27 2011
Location: University of Delaware
Deadline for Application: Apr 22, 2011
Registration fee: Free *

Overview
Third Little Skate Genome Annotation Workshop. Learn valuable bioinformatics skills in this four day hands-on bioinformatics workshop plus one day scientific symposium. Participants will learn how to use common bioinformatics applications and will gain experience completing hands-on exercises. The workshop is centered around annotation of the Little Skate genome, a project underway in the NECC, but the skills learned will apply broadly to many areas of research. No previous bioinformatics experience is necessary. Participants in the workshop are expected to present a poster on their current work, which need not be related to the workshop material or the Skate project. For additional information please visit: http://bioinformatics.udel.edu/AnnotationWorkshop

* Registration includes meals and lecture materials.

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Second Skate Genome Sequence Annotation Workshop
Date: October 12-15, 2010
Location: Mount Desert Island Biological Laboratory, Salisbury Cove, ME
Deadline for Application: Sept 24, 2010
Registration fee: Free*
Overview
The Skate Genome Sequence Annotation Jamboree is the second of three bioinformatics workshops planned to annotate the genome of the little skate, Leucoraja erinacea. The goal of the second workshop is to train participants in how to annotate skate transcriptome sequences to facilitate annotation of skate genome sequences. Results from a cDNA annotation pipeline will be used to automatically assign putative function to all available skate RNAseq data. We will manually review assignments to genes from the hedgehog and WNT signaling pathways and the ABC transporter gene family. We will also manually curate the mitochondrian genome sequence generated from a reference-based assembly of available skate genome sequence data.

Workshop organizers from the North East Bioinformatics Consortium are considering applications for up to six participants from each of the states of Delaware, Maine, New Hampshire, Rhode Island and Vermont who are students in undergraduate, graduate and post-graduate programs or work as research professionals. Although not required, your availability to attend at least one other workshop is desired so that you can apply concepts introduced in the first workshop.

To apply for this workshop, please follow the registration link where you will describe your rationale for attending.

Second Skate Genome Annotation Workshop Registration Link

Workshops are sponsored by the IDeA Network for Biomedical Research Excellence (INBRE) Program from the National Center of Research Resources at the National Institutes of Health.

* Registration includes meals and lecture materials.

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First Skate Genome Annotation Workshop
Date: May 24-28, 2010
Location: Clayton Hall Conference Center, University of Delaware, Newark, DE
Deadline for Application: April 23, 2010
Registration fee: Free*

Additional information can be found at:
http://bioinformatics.udel.edu/AnnotationWorkshop/Lectures

Overview
The Skate Genome Sequence Annotation Jamboree is the first of three bioinformatics workshops planned to annotate the genome of the little skate, Raja erinacea. The first, one week, intensive workshop will cover all aspects of genome sequence analysis required to annotate eukaryotic genomes. The following two workshops will focus on annotating the emerging skate sequence data and will be held in Oct 2010 at MDIBL and again at University of Delaware in April 2011.

Topics for the first workshop will include:
* Next generation genome sequencing
* de novo genome assembly
* Sequence databases and resources
* Sequence similarity analysis
* Gene prediction
* Phylogenetic analysis
* Protein structure analysis
* Biomedical ontologies
* Genome annotation tools
Workshop organizers from the North East Bioinformatics Consortium are considering applications for up to six participants from each of the states of Delaware, Maine, New Hampshire, Rhode Island and Vermont who are students in undergraduate, graduate and post-graduate programs or work as research professionals. Although not required, your availability to attend at least one other workshop is desired so that you can apply concepts introduced in the first workshop. Successful applicants will receive a travel award to attend the workshop that covers travel, food and lodging.

Workshops are sponsored by the IDeA Network for Biomedical Research Excellence (INBRE) Program from the National Center of Research Resources at the National Institutes of Health.

* Registration includes accommodation, meals and lecture materials.