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Pdf version of the RECOMB-Seq 2013 book of abstracts is available here.

RECOMB-Seq 2013 program

RECOMB 2013 Program

April 11 (Thursday)
  8:30-18:00 On-site registration
  9:00-9:10 Opening Remarks
Haixu Tang (Indiana University, USA)
  9:10-10:50 Session 1. Chair: Cenk Sahinalp (Simon Fraser University, Canada)
  9:10-10:10 Keynote Talk
Speaker: Colin Collins (Vancouver Prostate Centre, Canada)
Title: Of Men, Mice and Prostate Cancer
  10:10-10:30 Christine Lo, Sangwoo Kim, Shay Zakov and Vineet Bafna
Evaluating Genome Architecture of a Complex Region via Generalized Bipartite Matching
  10:30-10:50 Matthew Hayes and Jing Li
Bellerophon: a hybrid method for detecting interchromosomal rearrangements at base pair resolution using next-generation sequencing data
  10:50-11:10 Tea Break
  11:10-12:30 Session 2. Chair: Ben Raphael (Brown University, USA)
  11:10-11:30 Christopher Whelan and Kemal Sonmez
Cloudbreak: A MapReduce Algorithm for Detecting Genomic Structural Variation
  11:30-11:50 Chi-Long Li, Kun-Tze Chen and Chin Lung Lu
Assembling Contigs in Draft Genomes Using Reversals and Block-Interchanges
  11:50-12:10 Guy Bresler, Ma'ayan Bresler and David Tse
Optimal Assembly for High Throughput Shotgun Sequencing
  12:10-12:30 Evgeny Kapun and Fedor Tsarev
De Bruijn Superwalk with Multiplicities Problem is NP-hard
  12:30-14:30 Lunch Break and Poster Session
  12:30-13:30 Poster Setup (Guidelines)
  13:30-14:30 Poster Session
  14:30-16:10 Session 3. Chair: Xiaowo Wang (Tsinghua University, China)
  14:30-15:30 Keynote Talk
Speaker: Bing Ren (UCSD and Ludwig Institute for Cancer Research, USA)
Title: Sequencing the 3D Genome
  15:30-15:50 Haitham Ashoor, Aurélie Hérault, François Radvanyi, Vladimir B. Bajic, Emmanuel Barillot and Valentina Boeva
HMCan: a tool to detect chromatin modifications in cancer samples using ChIP-seq data
  15:50-16:10 Jacob Biesinger, Yuanfeng Wang and Xiaohui Xie
Discovering and Mapping Chromatin States Using a Tree Hidden Markov Model
  16:10-16:30 Tea Break
  16:30-17:50 Session 4. Chair: Eleazar Eskin (University of California, Los Angeles, USA)
  16:30-16:50 Alexandru I. Tomescu, Anna Kuosmanen, Romeo Rizzi and Veli Makinen
A Novel Min-Cost Flow Method for Estimating Transcript Expression with RNA-Seq
  16:50-17:10 Jing Zhang, C.-C. Jay Kuo and Liang Chen
WemIQ: a weighted-log-likelihood expectation maximization method for isoform quantification from RNA-Seq data
  17:10-17:30 Yi Li and Xiaohui Xie
A mixture model for expression deconvolution from RNA-seq in heterogeneous tissues
  17:30-17:50 Sponsored Talk
Haisheng Nie, Illumina China
Illumina’s comprehensive End-to-End solutions for Next-Generation Sequencing
  18:30-20:30 Banquet (all registrated participants)
April 12 (Friday)
  8:30-17:00 On-site registration
  9:00-10:40 Session 4. Chair: Haixu Tang (Indiana University, USA)
  9:00-10:00 Keynote Talk
Speaker: Inna Dubchak (DOE Joint Genome Institute and LBNL, USA)
Title: Efficient visualization of Next-Generation Sequencing data - are we there yet?
  10:00-10:20 Xi Wang and Murray J. Cairns
Gene Set Enrichment Analysis of RNA-Seq Data: Integrating Differential Expression and Splicing
  10:20-10:40 Jie Zhu, Yufang Qin, Taigang Liu, Xiaoqi Zheng and Jun Wang
Prioritization of candidate disease genes by topological similarity between disease and protein diffusion profiles
  10:40-11:00 Tea Break
  11:00-12:00 Session 6. Chair: Chair: Gary Benson (Boston University, USA)
  11:00-11:20 Seunghak Lee, Aurelie Lozano, Prabhanjan Kambadur and Eric Xing
Detecting SNP-SNP Interactions With Piecewise Independence Screening
  11:20-11:40 Yu Zhang
Inferring Population Stratification and Admixture in Sequencing Data with Little Ancestry Information
  11:40-12:00 Eric Bareke, Jean-Francois Spinella, Ramon Vidal, Jasmine Healy, Daniel Sinnett and Miklos Csuros
Joint genotype inference with germline and somatic mutations
  12:00-14:00 Lunch Break and Poster Session
  12:00-13:40 Poster Session
  13:40-14:00 Poster Removal
  14:00-15:20 Session 7. Chair: Weizhong Li (University of California, San Diego, USA)
  14:00-14:20 Roy Lederman
A Random-Permutations-Based Approach to Fast Read Alignment
  14:20-14:40 Christina Ander, Ole Schulz-Trieglaff, Jens Stoye and Anthony Cox
metaBEETL: high-throughput analysis of heterogeneous microbial populations from shotgun DNA sequences
  14:40-15:00 Yongchu Liu, Jiangtao Guo, Gangqing Hu and Huaiqiu Zhu
Gene Prediction in Metagenomic Fragments Based on the SVM Algorithm
  15:00-15:20 Manuel Allhoff, Alexander Schoenhuth, Marcel Martin, Ivan G. Costa, Sven Rahmann and Tobias Marschall
Discovering Motifs that Induce Sequencing Errors
  15:20-15:40 Tea Break
  15:40-16:40 Session 8. Chair: Rui Jiang (Tsinghua University, China)
  15:40-16:00 Li Song and Liliana Florea
CLASS: Constrained Transcript Assembly of RNA-seq Reads
  16:00-16:20 Gary Benson, Yevgeniy Gelfand, Joshua Loving and Yozen Hernandez
VNTRseek: A Computational Pipeline to Detect Tandem Repeat Variants in Next-Generation Sequencing Data: Analysis of the 454 Watson Genome
  16:20-16:40 Sheng Li, Francine Garrett-¬bakelman, Altuna Akalin, Paul Zumbo, Ross Levine, Ari Melnick and Christopher Mason
eDMR: An optimized algorithm for detecting and annotating regional differential methylation
  16:40-17:00 Closing Ceremony

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