Workshop II: Transcriptomics and Epigenomics

Part of the Long Program Mathematical and Computational Approaches in High-Throughput Genomics
October 25 - 28, 2011

Schedule

All times in this Schedule are Pacific Time (PT)

Tuesday, October 25, 2011

Morning Session
8:00 - 9:00 Check-In/Breakfast (Hosted by IPAM)
9:00 - 9:15 Welcome and Opening Remarks (Illumination Room)
9:15 - 10:05
Matteo Pellegrini (University of California, Los Angeles (UCLA))

Transgenerational Inheritance of DNA Methylation
Presentation (PowerPoint File)
10:15 - 10:45 Break
10:45 - 11:35
Joseph Ecker (The Salk Institute for Biological Studies)

Transgenerational Epigenetic Instability is a Source of Novel Methylation Variants

11:45 - 1:00 Lunch (on your own)

Afternoon Session
1:00 - 1:50
2:00 - 2:30 Break
2:30 - 3:20
Wei Li (Baylor College of Medicine)

Transcriptome Instability in Prostate Cancer

4:00 - 5:00 Public Lecture by Michael Brenner at CNSI Auditorium (Optional)
"The Science of Cooking"

Wednesday, October 26, 2011

Morning Session
8:00 - 9:00 Continental Breakfast
9:00 - 9:50
10:00 - 10:30 Break
10:30 - 11:20
Nir Friedman (Hebrew University)

Chromatin and Transcription: Adventures in Disentailing Complex Feedback Loops

11:30 - 12:00 Break
12:00 - 12:50
Tao Jiang (University of California, Riverside (UC Riverside))

A Combinatorial Approach to the Inference of Isoforms from Short Sequence Reads
PDF Presentation
1:00 - 2:30 Lunch (on your own)

Afternoon Session
2:30 - 3:20
Sandrine Dudoit (University of California, Berkeley (UC Berkeley))

Normalization and Differential Expression in RNA-Seq

3:30 - 4:00 Break
4:00 - 4:50
Christina Kendziorski (University of Wisconsin-Madison)

Identifying DE Isoforms in an RNA-seq experiment
PDF Presentation
5:00 - 6:30 Reception and Poster Session (Hosted by IPAM)

Thursday, October 27, 2011

Morning Session
8:00 - 9:00 Continental Breakfast
9:00 - 9:50
Zhiping Weng (University of Massachusetts Medical School)

Computational Analysis of Human Epigenome and Regulate
PDF Presentation
10:00 - 10:30 Break
10:30 - 11:20
Yuval Kluger (Yale University)

 

11:30 - 12:00 Break
12:00 - 12:50
1:00 - 2:30 Lunch (on your own)

Afternoon Session
2:30 - 3:20
Henrik Bengtsson (University of California, San Francisco (UCSF))

Single-Pair Parent-Specific Copy Number Analysis
PDF Presentation
3:30 - 4:00 Break
4:00 - 4:50

Friday, October 28, 2011

Morning Session
8:00 - 9:00 Continental Breakfast
9:00 - 9:50
10:00 - 10:30 Break
10:30 - 11:20
11:30 - 12:00 Break
12:00 - 12:50
Adam Roberts (University of California, Berkeley (UC Berkeley))

eXpress
PDF Presentation
1:00 - 2:30 Lunch (on your own)

Afternoon Session
2:30 - 3:20
Hongkai Ji (Johns Hopkins University)

Differential principal component analysis of ChIP-seq
Presentation (PowerPoint File)
3:30 - 4:00 Break
4:00 - 4:50