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BMC Bioinformatics

Volume 13 Supplement 6

Proceedings of the Second Annual RECOMB Satellite Workshop on Massively Parallel Sequencing (RECOMB-seq 2012)

Proceedings

Edited by Paul Medvedev and Eleazar Eskin

Second Annual RECOMB Satellite Workshop on Massively Parallel Sequencing. Go to conference site.

Barcelona, Spain19-20 April 2012

  1. Content type: Proceedings

    The very large memory requirements for the construction of assembly graphs for de novo genome assembly limit current algorithms to super-computing environments.

    Authors: Chengxi Ye, Zhanshan Sam Ma, Charles H Cannon, Mihai Pop and Douglas W Yu

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S1

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  2. Content type: Proceedings

    High-throughput sequencing of whole genomes and transcriptomes allows one to generate large amounts of sequence data very rapidly and at a low cost. The goal of most mRNA sequencing studies is to perform the c...

    Authors: Ekaterina E Khrameeva and Mikhail S Gelfand

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S4

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  3. Content type: Proceedings

    In this paper, we address the problem of identifying and quantifying polymorphisms in RNA-seq data when no reference genome is available, without assembling the full transcripts. Based on the fundamental idea ...

    Authors: Gustavo AT Sacomoto, Janice Kielbassa, Rayan Chikhi, Raluca Uricaru, Pavlos Antoniou, Marie-France Sagot, Pierre Peterlongo and Vincent Lacroix

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S5

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  4. Content type: Proceedings

    Alu polymorphisms are some of the most common polymorphisms in the genome, yet few methods have been developed for their detection.

    Authors: Jón Ingi Sveinbjörnsson and Bjarni V Halldórsson

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S7

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  5. Content type: Proceedings

    Modern genetics has been transformed by high-throughput sequencing. New experimental designs in model organisms involve analyzing many individuals, pooled and sequenced in groups for increased efficiency. Howe...

    Authors: Matthew D Edwards and David K Gifford

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S8

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  6. Content type: Proceedings

    Sequencing of mRNA (RNA-seq) by next generation sequencing technologies is widely used for analyzing the transcriptomic state of a cell. Here, one of the main challenges is the mapping of a sequenced read to i...

    Authors: Thomas Bonfert, Gergely Csaba, Ralf Zimmer and Caroline C Friedel

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S9

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  7. Content type: Proceedings

    A cancer genome is derived from the germline genome through a series of somatic mutations. Somatic structural variants - including duplications, deletions, inversions, translocations, and other rearrangements ...

    Authors: Layla Oesper, Anna Ritz, Sarah J Aerni, Ryan Drebin and Benjamin J Raphael

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S10

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  8. Content type: Proceedings

    Transcript quantification is a long-standing problem in genomics and estimating the relative abundance of alternatively-spliced isoforms from the same transcript is an important special case. Both problems hav...

    Authors: Boyko Kakaradov, Hui Yuan Xiong, Leo J Lee, Nebojsa Jojic and Brendan J Frey

    Citation: BMC Bioinformatics 2012 13(Suppl 6):S11

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