VectorBase Workshop // Eck Institute for Global Health // University of Notre Dame

Eck Institute for Global Health

VectorBase Workshop

ARTHROPOD GENOMICS 2013 ONWARD

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VectorBase Hands-on Workshop (optional pre-meeting workshop, registration for the VectorBase workshop includes meeting materials, afternoon break on Wednesday, morning break, lunch, and afternoon break on Thursday. Lodging must be booked separately)

For more infomation about the VectorBase workshop click here

VectorBase Hands-on Workshop

McKenna Hall, University of Notre Dame, Notre Dame, IN (Follow this link for a campus map)

Instructors

Gloria I. Giraldo-Calderón (University of Notre Dame)

Andrew Sheehan (University of Notre Dame)

Dan Lawson (European Molecular Biology Laboratory, EMBL - European Bioinformatics Institute, EBI)

Scott Emrich (University of Notre Dame)

Robert M. Waterhouse (University of Geneva Medical School - Massachusetts Institute of Technology, MIT)

About the VectorBase Hands-on Workshop

The goal of the workshop is to present a brief overview of the (NEW) VectorBase website and offer a training and data analysis opportunity to users. This two-day event will comprise a mixture of lectures and hands-on practical sessions where users can discuss their own data sets/problems with the instructors and fellow attendees. The instructors will be vector bioinformaticians and biologists.

Computer and Internet Access

The training room will not provide computers for participants. You are encouraged to bring your own laptop to use. Arrive early in order to get access to the Internet.

Registration

Seating is limited to 30 people. Please register early to ensure a seat. To register please follow this link . After you register please contact Gloria Giraldo-Calderon at ggiraldo@nd.edu and include the following in your email: your 1) research interest detailing your aims, hypotheses, research questions, gene or genes of interest; 2) data type you work with or would like to work with, e.g. RNA-seq, re-sequencing, SNP calls, insecticide resistance data; 3) data status, e.g. raw, processed or ready for submission and; 4) up to three specific questions about VectorBase that would help you with your research (300 words maximum).

Agenda

Wednesday, June 12, 2013, 1:00 – 5:00 pm

11:00 am – 1:00 pm: Poster Set-up

1:00 – 1:30 pm: VectorBase (NEW) website navigation

1:30 – 3:00 pm: Finding, visualizing and exporting data (tutorial and exercises)

  • Available data types: VectorBase data and external data sets
  • Search
  • BioMart

3:00 – 3:30 pm: Beak

3:30 – 5:00 pm: Poster session (5 or 10 min presentation from each participant/lab/group)

5:00 pm – 5:30 pm: Remove posters

Thursday, June 13, 2013, 8:30 am – 5:00 pm

8:30 am – 10:00 am: Finding, visualizing and uploading data (tutorial and exercises)

  • Browsing genomes: visualizing and adding tracks
  • Ontology Browser
  • Insecticide resistance database
  • Population biology browser (beta)

10:00 – 10:30 pm : Break

10:30 – 12:00 pm: How to contribute to VectorBase and get community visibility for your research work?

  • Curate and submit genes
  • Link genes to publications
  • Add (submit) transcript or protein data

12:00 - 1:00 pm: Lunch

1:00 - 2:00 pm: Invited speaker: Dr. William Gelbart (FlyBase & Harvard University), Mining FlyBase for Gene Function.

2:00 – 3:00 pm: Annotation of vector genomes at VectorBase (tutorial)

3:00 - 3:30 pm: Break

3:30 - 5:00 pm: Be a VectorBase “power user”

  • Using HMMER versus BLAST to find homologs
  • How to make the best use of your data, VectorBase data, tools and resources to analyze and publish your research?
  • Hands on session with attendees’ datasets.
  • Opportunity to interact with other VectorBase bioinformaticians and biologists using VectorBase forum.

NOTE:

You are strongly encouraged to bring your own data for all the sessions to make the best out of the hands-on sessions of each of the workshop topics.


Meeting Date:  Wednesday, June 12, 2013 - 13:00 to Saturday, June 15, 2013 - 17:30