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Program

All events will be held at SFU Harbour Centre, 555W Hastings St, Vancouver.

All joint sessions will be held in Room 1900 (Fletcher Challenge Theatre).

Saturday March 26

09:00

Welcome and introduction (joint)

09:15

Keynote address (joint):
Lior Pachter - Advances in transcript assembly and quantification using RNA-Seq

10:15

Invited talk (joint):
Chris Greenman - Rearrangement Phylogeny in Cancer

11:00

Coffee break (joint)

11:15

Breakout session (separate short talks)

12:30

Lunch - self-served, no catering will be provided

14:00

Breakout session (separate short talks)

15:30

Coffee break (joint)

16:00

Breakout session (separate short talks)

 

Sunday March 27

09:00

Keynote address (joint):
Florian Markowetz - Integrative analysis of breast cancer: Dissecting heterogeneity in samples and signals

10:00

Invited talk (joint):
Quaid Morris - Computational purification of tumour expression profiles

10:45

Coffee break

11:00

Breakout session (separate short talks)

12:30

Lunch - networking lunch, catering will be provided

13:30

Poster session (joint)

15:00

Invited talk (joint):
Christina Leslie - Inferring transcriptional and microRNA-mediated regulatory programs in glioblastoma

15:45

Keynote address (joint):
David Jaffe - High-quality draft assemblies of large and small genomes from massively parallel DNA sequence data

16:45

Closing remarks (joint)

 


Breakout Sessions for RECOMB-seq

All RECOMB-seq sessions will be held in Room 1900 (Fletcher Challenge Theatre).

Saturday March 26

11:15

Breakout session (separate short talks)

11:15 - 11:40

Genotyping common and rare variation using overlapping pool sequencing
Dan He, Noah Zaitlen, Bogdan Pasaniuc, Eleazar Eskin and Eran Halperin

11:45 - 12:05

Short talk: Improved Variant Discovery and Allele Frequency Estimation from Pooled DNA Resequencing with Bayesian Latent Class Analysis and Compositional Bias Models
Shom Paul and Aaron Mackey

12:05 - 12:25

Short talk: TavernaPBS: Custom Next-Generation Sequence Analysis Workflows using High-Performance Computing Resources with Taverna and PBS
Mark Lawson, Paul Shuber and Aaron Mackey

12:30

Lunch

14:00

Breakout session (separate short talks)

14:00 - 14:30

Inferring Viral Spectrum from 454 Pyrosequencing Reads
Irina Astrovskaya, Bassam Tork, Serghei Mangul, Kelly Westbrooks, Ion Mandoiu, Peter Balfe and Alex Zelikovsky

14:30 - 14:50

Short talk: Separating Metagenomic Data into Genomes via Clustering
Olga Tanaseichuk and Tao Jiang

14:50 - 15:10

Short talk: Accurate Estimation of Gene Expression Levels from DGE Sequencing Data
Marius Nicolae and Ion Mandoiu

15:10 - 15:30

Short talk: A Whole-Genome Probe Design for Massively Parallel Variant Validation using Selective Circularization
Daniel Newburger, Georges Natsoulis, Hua Xu, Sue Grimes, John Bell and Hanlee Ji

15:30

Coffee break (joint)

16:00

Breakout session (separate short talks)

16:00 - 16:30

A Hidden Markov Model for Copy Number Variant Prediction from Whole Genome Resequencing Data
Yufeng Shen, Yiwei Gu and Itsik Pe'Er

16:30 - 16:50

Short talk: mTiM: margin-based transcript mapping from RNA-seq
Georg Zeller, Nico Goernitz, Gunnar Raetsch, Jonas Behr, Andre Kahles, Soeren Sonnenburg and Pramod Mudrakarta

16:50 - 17:10

Short talk: Modeling and automation of sequencing-based determination of RNA structure
Sharon Aviran, Cole Trapnell, Julius Lucks, Stefanie Mortimer, Shujun Luo, Gary Schroth, Jennifer Doudna, Adam Arkin and Lior Pachter

17:10 - 17:30

Short talk: Counting k-mers with a Bloom Filter
Pall Melsted and Jonathan Pritchard

 

Sunday March 27

11:00

Breakout session (separate short talks)

11:00 - 11:30

Assembly of non-unique insertion content using next-generation sequencing
Nathaniel Parrish, Farhad Hormozdiari and Eleazar Eskin

11:30 - 11:50

Short talk: Finding Deletions with Exact Break Points from Noisy Low Coverage Paired-end Short Sequence Reads
Jin Zhang and Yufeng Wu

11:50 - 12:10

Short talk: Contig graph mining for duplication breakpoints
Jurgen F. Nijkamp, Jean-Marc Daran, Marcel J.T. Reinders and Dick De Ridder

12:10 - 12:30

Short talk: Constrained traversal of repeats with paired sequences
Sébastien Boisvert, Élénie Godzaridis, François Laviolette and Jacques Corbeil

12:30

Lunch

 


Breakout Sessions for RECOMB-CCB

All RECOMB-CCB sessions will be held in Room 1700 (Labatt Hall).

Saturday March 26

11:15

Breakout session (separate short talks)

11:15 - 11:40

Analyzing the genome of the Tasmanian Devil and its transmissible cancer
Ole Schulz-Trieglaff, Elizabeth Murchison, Zemin Ning, Wendy Wong, Markus Bauer, Jennifer Becq, Anthony J. Cox, Matthew Hims, Sean Humphray, Sergii Ivakhno, Irina Khrebtukova, Ludmil Alexandrov, Shujun Luo, Lisa Murray, Richard Shaw, Philip Tedder, Dirk Evers, Niall Gormley, Gary Schroth, Geoffrey Smith, David Bentley and Mike Stratton

11:45 - 12:05

RNA-Seq profiling of prostate tumors identify subtype specific splice signatures and metastasis associated splice patterns
Anna Lapuk, Chunxiao Wu, Jamie Rosner, Sonal Brahmbhatt, Shawn Anderson, Stas Volik, Robert Bell, Anne Haegert, Ladan Fazli, Antonio Hurtado-Coll, Yongjun Zhao, Marco Marra, Martin Gleave and Colin Collins

12:05 - 12:25

Sequence-Based Profiling of Prostate Tumours
Stanislav Volik, Anna Lapuk, Chunxiao Wu, Andrew Mcpherson, Martin Gleave, Yuzhuo Wang, Antonio Hurtado-Coll, Ladan Fazli, Sonal Brahmbhatt, Anne Haegert, Robert Bell, Shawn Anderson, Martin Hirst, Yongjun Zhao, Steven Jones, Sohrab Shah, Fereydoun Hormozdiari, Marco Marra, Cenk Sahinalp and Colin Collins

12:30

Lunch

14:00

Breakout session (separate short talks)

14:00 - 14:25

Predicting Chemotherapeutic Response Using Optimally Discriminative Subnetworks
Kendric Wang, Phuong Dao, Martin Ester, Collin Collins, Anna Lapuk and Cenk Sahinalp

14:25 - 14:50

Computational purification of tumor gene expression profiles leads to predictive models of patient outcome
Gerald Quon, Syed Haider, Ang Cui, Paul Boutros and Quaid Morris

15:30

Coffee break (joint)

16:00

Breakout session (separate short talks)

16:00 - 16:25

AInferring Candidate Somatic Deletions using Short-Reads Combined from Normal and Mixed Samples
Roland Wittler and Cedric Chauve

16:25 - 16:50

A Bayesian approach for sensitive detection of somatic genomic alterations from next-generation sequencing of clinical cancer specimens
Roman Yelensky, Doron Lipson, Alex Parker, Mirna Jarosz, Christine Sheehan, Frank Juhn, Zac Zwirko, Kristina Brennan, Troy Bloom, Sean Downing, John Curran, Jeffrey Ross and Maureen Cronin

16:50 - 17:15

Detecting Somatic Mutations In Tumour/Normal Paired Sample Sequence Data
Andrew Roth, Anamaria Crisnan, Samuel Aparicio and Sohrab Shah

17:15 - 17:30

Accurate somatic point mutation prediction using supervised machine learning algorithms
Jiarui Ding, Andrew Roth, Ryan Giuliany, Sam Aparicio and Sohrab Shah

 

Sunday March 27

11:00

Breakout session (separate short talks)

11:00 - 11:25

Reconstructing Cancer Genome Organization from Paired End Sequencing
Layla Oesper, Sarah J. Aerni, Ryan Drebin and Benjamin J. Raphael

11:25 - 11:50

A systematic assessment of associations among chromosomal aberrations in cancer karyotypes
Ron Shamir, Michal Ozery-Flato, Chaim Linhart, Luba Trachtenbrot and Shai Izraeli

11:50 - 12:15

Statistical approaches for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data
Christopher Yau and Christopher C. Holmes

12:15 - 12:30

deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data
Andrew Mcpherson, S. Cenk Sahinalp, David Huntsman and Sohrab Shah

12:30

Lunch