RECOMB-Seq 2014 Proceedings

Pittsburgh, PA, United States, March 31 - April 1, 2014

PC Chairs: Mihai Pop and Ali Bashir
Keynote Speakers: Cecilia Lo and Ben Raphael

Full Papers

• Assembly-free genome comparison based on next-generation sequencing reads and variable length patterns. Matteo Comin and Michele Schimd. BMC Bioinformatics 15 (Suppl 9) S1 (2014)
• SWAP-Assembler: scalable and efficient genome assembly towards thousands of cores. Jintao Meng, Bingqiang Wang, Yanjie Wei, Shengzhong Feng and Pavan Balaji. BMC Bioinformatics 15 (Suppl 9) S2 (2014)
• Piecing the puzzle together: a revisit to transcript reconstruction problem in RNA-seq. Yan Huang, Yin Hu and Jinze Liu. BMC Bioinformatics 15 (Suppl 9) S3 (2014)
• Near-optimal assembly for shotgun sequencing with noisy reads. Ka-Kit Lam, Asif Khalak and David Tse. BMC Bioinformatics 15 (Suppl 9) S4 (2014)
• On the complexity of Minimum Path Cover with Subpath Constraints for multi-assembly. Romeo Rizzi, Alexandru I Tomescu and Veli Mäkinen. BMC Bioinformatics 15 (Suppl 9) S5 (2014)
• BADGE: A novel Bayesian model for accurate abundance quantification and differential analysis of RNA-Seq data. Jinghua Gu, Xiao Wang, Leena Halakivi-Clarke, Robert Clarke and Jianhua Xuan. BMC Bioinformatics 15 (Suppl 9) S6 (2014)
• Fast lossless compression via cascading Bloom filters. Roye Rozov, Ron Shamir and Eran Halperin. BMC Bioinformatics 15 (Suppl 9) S7 (2014)
• Gene finding in metatranscriptomic sequences. Wazim Mohammed Ismail, Yuzhen Ye and Haixu Tang. BMC Bioinformatics 15 (Suppl 9) S8 (2014)
• ILP-based maximum likelihood genome scaffolding. James Lindsay, Hamed Salooti, Ion Măndoiu and Alex Zelikovsky. BMC Bioinformatics 15 (Suppl 9) S9 (2014)
• CASPER: context-aware scheme for paired-end reads from high-throughput amplicon sequencing. Sunyoung Kwon, Byunghan Lee and Sungroh Yoon. BMC Bioinformatics 15 (Suppl 9) S10 (2014)
• PuFFIN - a parameter-free method to build nucleosome maps from paired-end reads. Anton Polishko, Evelien M Bunnik, Karine G Le Roch and Stefano Lonardi. BMC Bioinformatics 15 (Suppl 9) S11 (2014)
• ARYANA: Aligning Reads by Yet Another Approach. Milad Gholami, Aryan Arbabi, Ali Sharifi-Zarchi, Hamidreza Chitsaz and Mehdi Sadeghi. BMC Bioinformatics 15 (Suppl 9) S12 (2014)
• Ensemble analysis of adaptive compressed genome sequencing strategies. Zeinab Taghavi. BMC Bioinformatics 15 (Suppl 9) S13 (2014)
• A better sequence-read simulator program for metagenomics. Stephen Johnson, Brett Trost, Jeffrey R Long, Vanessa Pittet and Anthony Kusalik. BMC Bioinformatics 15 (Suppl 9) S14 (2014)
• ProbeAlign: incorporating high-throughput sequencing-based structure probing information into ncRNA homology search. Ping Ge, Cuncong Zhong and Shaojie Zhang. BMC Bioinformatics 15 (Suppl 9) S15 (2014)
• Detecting epigenetic motifs in low coverage and metagenomics settings. Noam D Beckmann, Sashank Karri, Gang Fang and Ali Bashir. BMC Bioinformatics 15 (Suppl 9) S16 (2014)