RECOMB-Seq 2017 Proceedings

Hong Kong SAR, China, May 1-2, 2017

PC Chairs: Fereydoun Hormozdiari and Jian Ma
Keynote Speakers: Olga Troyanskaya and Sharon Aviran

Full Papers

  • QUENTIN: accurate reconstruction of disease transmissions from viral quasispecies genomic data. Pavel Skums, Alex Zelikovsky, Sergey Knyazev, Igor Mandric, Zoya Dimitrova, Sumathi Ramachandran, David Stiven Campo Rendon, Leonid Bunimovich, Elizabeth Costenbader, Connie Sexton, Siobhan O’Connor, Guo-Liang Xia and Yury Khudyakov. Bioinformatics, 34 (1): 163-170, (2018)
  • An accurate algorithm for the detection of DNA fragments from dilution pool sequencing experiments. Vikas Bansal. Bioinformatics, 34 (1): 155-162, (2018)
  • A novel data structure to support ultra-fast taxonomic classification of metagenomic sequences with k-mer signatures. Xinan Liu, Ye Yu, Jinpeng Liu, Chen Qian and Jinze Liu. Bioinformatics, 34 (1): 171-178, (2018)
  • DIMM-SC: A Dirichlet mixture model for clustering droplet-based single cell transcriptomic data. Zhe Sun, Ting Wang, Ke Deng, Xiao-Feng Wang, Robert Lafyatis, Ying Ding, Ming Hu and Wei Chen. Bioinformatics, 34 (1): 139-146, (2018)
  • Transcription factor-8mer glossary with GENRE genomic background enables precise identification of lineage-specific co-regulators. Luca Mariani, Kathryn Weinand, Anastasia Vedenko, Luis A Barrera and Martha L Bulyk. Cell Systems, 5 (3):187-201.e7, (2017)
  • In-silico read normalization using set multicover optimization. Dilip Durai and Marcel Schulz. Bioinformatics, 34 (19): 3273-3280, (2018)
  • Repeat-aware evaluation of scaffolding tools. Igor Mandric, Sergey Knyazev and Alex Zelikovsky. Bioinformatics, 34 (15): 2530-2537, (2018)
  • Faucet: streaming de novo assembly graph construction. Roye Rozov, Gil Goldshlager, Ron Shamir and Eran Halperin. Bioinformatics, 34 (1): 147-154, (2018)

Short Talks Selected from Abstracts

  • Genomic reads forests for compressed representation of high throughput sequence data. Tony Ginart, Kaiyuan Zhu, Joseph Hui, Ibrahim Numanagic, David Tse, Thomas Courtade and Cenk Sahinalp.
  • Faster omnitig listing for safe and complete contig assembly. Massimo Cairo, Paul Medvedev, Nidia Obscura Acosta, Romeo Rizzi and Alexandru I. Tomescu.
  • Probabilistic estimation of overlap graphs for large sequence datasets. Rahul Nihalani, Sriram P. Chockalingam, Shaowei Zhu, Vijay Vazirani and Srinivas Aluru.
  • TransPac: transposon detection and characterization from long-reads. Xintong Chen, Oscar Rodriguez, Matthew Pendleton, Bojan Losic and Ali Bashir.
  • Variant tolerant read mapping using min-hashing. Jens Quedenfeld and Sven Rahmann.
  • MetaCherchant – an algorithm for analyzing genomic environment of antibiotic resistance gene in gut microbiota. Evgenii I. Olekhnovich, Artem T. Vasilyev, Vladimir I. Ulyantsev and Alexander V. Tyakht.
  • ARCS: assembly roundup by chromium scaffolding. Sarah Yeo, Lauren Coombe, Justin Chu, Rene Warren and Inanc Birol.
  • Kohdista: a succinct solution to Rmap alignment. Martin Muggli, Simon Puglisi and Christina Boucher.
  • A tensor factorization framework for haplotype assembly of diploids and polyploids. Abolfazl Hashemi, Banghua Zhu and Haris Vikalo.
  • LEAP: a generalization of the landau-vishkin algorithm with custom gap penalties. Hongyi Xin, Jeremie Kim, Sunny Nahar, Can Alkan and Onur Mutlu.
  • Theory and algorithm for the minimum path flow decomposition problem. Mingfu Shao and Carl Kingsford.