Genomics Workshop at Avian Models Systems - CSHL, USA
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Date:
Tuesday 4 March 2014Venue:
Grace Auditorium, Cold Spring Harbor Laboratory - Grace Auditorium, Cold Spring Harbor Laboratory, New York, , NY, NY 11724-2213, United StatesParticipation:
Open application with selectionContact:
Holly FosterRegistration closed
Course Overview
We are pleased to announce a Cold Spring Harbor winter biotechnology conference on Avian Model Systems which will begin on Wednesday evening, March 5 and end at noon on Saturday, March 8, 2014. The meeting will be preceeded by a 2-day Avian Genomics workshop run in collaboration with EMBL-EBI and WTSI, which will begin at 9:00 a.m. on Tuesday March 4 and end before dinner on Wednesday March 5, just prior to the start of the main meeting.
This workshop will provide an introduction to using public resources to study avian genomics, and to NGS sequence analysis.
Audience
This workshop is aimed at biologists who are interested in using avian genomes in their work.
Learning outcomes
After this workshop you will be able to:
- Search, query and retrive data from public resources for avian genome data
- Use bioinformatics tools to process and analyses NGS data
Programme
Time | Topic | Trainer |
---|---|---|
Day 1 - 4 March 2014 | ||
09:00-11:00 | Browsing Avian Genomes with Ensembl (Lecture and Hands-on) | Denise Carvalho-Silva |
11:00 - 11:30 | Tea/coffee break | |
11:30 - 12:30 | Browsing Avian Genomes with Ensembl (Lecture and Hands-on) (+ Introduction to BioMart) | Denise Carvalho-Silva |
12:30 - 13:30 | Lunch | |
13:30 - 15:00 | Browsing Avian Genomes with Ensembl (Lecture and Hands-on) (Going Deeper) | Denise Carvalho-Silva |
15:00 - 15:30 | Tea/coffee break | |
15:30 - 16:00 | Lecture: Next generation sequencing overview | Myrto Kostadima/Remco Loos |
16:00 - 17:00 | Lecture & Practical: NGS quality control | Myrto Kostadima/Remco Loos |
19:00 - 20:30 | Lecture & Practical: Sequence alignment | Myrto Kostadima/Remco Loos |
20:30 - 21:30 | Lecture: Introduction to ChIP-seq | Myrto Kostadima/Remco Loos |
Day 2 - 5 March 2014 | ||
09:00 - 10:30 | Practical: ChIP-seq - peak calling and annotation (with quick coffee break) | Myrto Kostadima/Remco Loos |
10:30 - 12:00 | Practical: ChIP-seq - motif analysis | Myrto Kostadima/Remco Loos |
12:00 - 13:00 | Lunch | |
13:00 - 14:00 | Lecture: Transcriptome assembly and differential expression analysis | Myrto Kostadima/Remco Loos |
14:00 - 15:30 | Practical: Reference guided transcriptome assembly (with quick coffee break) | Myrto Kostadima/Remco Loos |
15:30 - 17:00 | Practical: Differential expression analysis | Myrto Kostadima/Remco Loos |