Skip to main content

Volume 15 Supplement 9

Proceedings of the Fourth Annual RECOMB Satellite Workshop on Massively Parallel Sequencing (RECOMB-Seq 2014)

Proceedings

Edited by Mihai Pop and Ali Bashir

Publication of this supplement has been partly funded by the RECOMB-Seq Workshop. Articles are based on presentations made at the conference. Information about the source of funding for the remaining publication charges can be found in the individual articles. The peer review process was overseen by the Supplement Editors in accordance with BioMed Central’s peer review guidelines for supplements. Supplement Editor declarations: Ali Bashir declares that he has previously been employed at Pacific Biosciences (2009-2011); Mihai Pop has no competing interests to declare.

RECOMB-Seq: Fourth Annual RECOMB Satellite Workshop on Massively Parallel Sequencing. Go to conference site.

Pittsburgh, PA, USA31 March - 1 April 2014

  1. There is a widening gap between the throughput of massive parallel sequencing machines and the ability to analyze these sequencing data. Traditional assembly methods requiring long execution time and large amo...

    Authors: Jintao Meng, Bingqiang Wang, Yanjie Wei, Shengzhong Feng and Pavan Balaji

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S2

    Content type: Proceedings

    Published on:

  2. Recent work identified the fundamental limits on the information requirements in terms of read length and coverage depth required for successful de novo genome reconstruction from shotgun sequencing data, based o...

    Authors: Ka-Kit Lam, Asif Khalak and David Tse

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S4

    Content type: Proceedings

    Published on:

  3. Recent advances in RNA sequencing (RNA-Seq) technology have offered unprecedented scope and resolution for transcriptome analysis. However, precise quantification of mRNA abundance and identification of differ...

    Authors: Jinghua Gu, Xiao Wang, Leena Halakivi-Clarke, Robert Clarke and Jianhua Xuan

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S6

    Content type: Proceedings

    Published on:

  4. Data from large Next Generation Sequencing (NGS) experiments present challenges both in terms of costs associated with storage and in time required for file transfer. It is sometimes possible to store only a s...

    Authors: Roye Rozov, Ron Shamir and Eran Halperin

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S7

    Content type: Proceedings

    Published on:

  5. Metatranscriptomic sequencing is a highly sensitive bioassay of functional activity in a microbial community, providing complementary information to the metagenomic sequencing of the community. The acquisition...

    Authors: Wazim Mohammed Ismail, Yuzhen Ye and Haixu Tang

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S8

    Content type: Proceedings

    Published on:

  6. Interest in de novo genome assembly has been renewed in the past decade due to rapid advances in high-throughput sequencing (HTS) technologies which generate relatively short reads resulting in highly fragmented ...

    Authors: James Lindsay, Hamed Salooti, Ion Măndoiu and Alex Zelikovsky

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S9

    Content type: Proceedings

    Published on:

  7. We introduce a novel method, called PuFFIN, that takes advantage of paired-end short reads to build genome-wide nucleosome maps with larger numbers of detected nucleosomes and higher accuracy than existing too...

    Authors: Anton Polishko, Evelien M Bunnik, Karine G Le Roch and Stefano Lonardi

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S11

    Content type: Proceedings

    Published on:

  8. Although there are many different algorithms and software tools for aligning sequencing reads, fast gapped sequence search is far from solved. Strong interest in fast alignment is best reflected in the $106 prize...

    Authors: Milad Gholami, Aryan Arbabi, Ali Sharifi-Zarchi, Hamidreza Chitsaz and Mehdi Sadeghi

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S12

    Content type: Proceedings

    Published on:

  9. There are many programs available for generating simulated whole-genome shotgun sequence reads. The data generated by many of these programs follow predefined models, which limits their use to the authors' ori...

    Authors: Stephen Johnson, Brett Trost, Jeffrey R Long, Vanessa Pittet and Anthony Kusalik

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S14

    Content type: Proceedings

    Published on:

  10. Recent advances in RNA structure probing technologies, including the ones based on high-throughput sequencing, have improved the accuracy of thermodynamic folding with quantitative nucleotide-resolution struct...

    Authors: Ping Ge, Cuncong Zhong and Shaojie Zhang

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S15

    Content type: Proceedings

    Published on:

  11. It has recently become possible to rapidly and accurately detect epigenetic signatures in bacterial genomes using third generation sequencing data. Monitoring the speed at which a single polymerase inserts a b...

    Authors: Noam D Beckmann, Sashank Karri, Gang Fang and Ali Bashir

    Citation: BMC Bioinformatics 2014 15(Suppl 9):S16

    Content type: Proceedings

    Published on:

  • Editorial Board
  • Sign up for article alerts and news from this journal
  • As a result of the significant disruption that is being caused by the COVID-19 pandemic we are very aware that many researchers will have difficulty in meeting the timelines associated with our peer review process during normal times.  Please do let us know if you need additional time. Our systems will continue to remind you of the original timelines but we intend to be highly flexible at this time.

2019 Journal Metrics

  • Citation Impact
    3.242 - 2-year Impact Factor
    3.213 - 5-year Impact Factor
    1.156 - Source Normalized Impact per Paper (SNIP)
    1.626 - SCImago Journal Rank (SJR)

    Usage 
    4,058,323 downloads

    Social Media Impact
    6067 mentions