Computational Genomics, November 9 - 15, 2011


Participating Faculty

Books on Computational Biology and Molecular Evolution

Group Photo

9 Nov. Wednesday

9:00 Introduction and Overview Pearson/Stubbs
9:30 Protein Evolution and Sequence Similarity Searching Pearson
 
1:30 Workshop I: Similarity searching and statistics
4:00 Poster Session/Wine and Cheese
 
7:30 Review
8:00 Databases for Computational Biology Ouellette

10 Nov. Thursday

9:00 Sensitive sequence comparison strategies (PSSMs and HMMs) Pearson
11:00 Workshop II: BLAST/PSI-Blast/HMMER3 workshop
 
1:30 Review
2:00 Introduction to Metagenomics White
3:30 Workshop III Metagenomics Strategies
16S Prokayrotic composition analysis
 
7:30 Review
8:00 Gene Lists, Interaction and Pathway Databases Ouellette

11 Nov. Friday

9:00 Metagenomics II - Biology White
10:30 Workshop IV -- Metagenomics II
Metagenomics analysis tools
 
1:30 The Ensembl Database of Genomes I Overduin
3:30 Workshop V -- Ensembl
 
7:30 Review
8:00 Introduction to Genome Biology Stubbs
9:00 Student Data Workshop I

12 Nov. Saturday

9:00 Analysis of NextGen Sequence data I Mackey
11:00 Galaxy for High Throughput Analysis Taylor
 
1:30 Workshop VI - Galaxy Pipelines
Galaxy public excercises
3:30 ENSEMBL/BioMart Overduin
Ensembl API
4:00 Workshop - Biomart
 
7:30 Analysis of Genome Sequence data II -- RNA-seq Mackey
9:00 Workshop VII - RNA-seq analysis with Galaxy
Galaxy site
Galaxy RNA-seq exercise
Galaxy BED to Genes
Cistrome site
Cistrome Analysis pipeline

13 Nov. Sunday

9:00 Review
9:30 Identfying Functional Elements: I Stubbs/Smith
Regulatory Sequence Analysis
11:00 Workshop VIII Functional Analysis
(a) Gene analysis with DAVID
(b) zPicture/MULAN chromosome alignment
 
1:30 Review
2:00 NextGen Biology: chromatin and transcription-factor mapping Stubbs
3:30 Workshop IX Motif finding in ChIP-Seq data
Galaxy public excercises
(a) MEME
(b) Cisfinder
4:30 Student Data Workshop II
 
6:00 Banquet

14 Nov. Monday

9:00 Functional Elements: II - Epigenomics Smith
The primate sperm methylome
11:00 Workshop X Epigenomic analysis
 
1:30 Student Projects -- Progress Report
3:30 CSHL Tour - Grace Auditorium
4:30 ??PhD Movie - Grace Auditorium
 
7:30 Course Overview/Discussion Pearson/Stubbs
8:00 Student Projects

15 Nov. Tuesday

8:30 Student Projects -- Final Presentation
11:30 Farewell


Last updated: Wed Nov 16 13:32:46 2011