Near-optimal probabilistic RNA-seq quantification View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2016-04-04

AUTHORS

Nicolas L Bray, Harold Pimentel, Páll Melsted, Lior Pachter

ABSTRACT

A pseudoalignment-based method enables faster quantification and measurement of uncertainty in RNA-seq experiments.

PAGES

525-527

References to SciGraph publications

  • 2013-01-01. Streaming fragment assignment for real-time analysis of sequencing experiments in NATURE METHODS
  • 2012-01-08. De novo assembly and genotyping of variants using colored de Bruijn graphs in NATURE GENETICS
  • 2014-04-20. Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms in NATURE BIOTECHNOLOGY
  • 2011-08-04. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome in BMC BIOINFORMATICS
  • 2007-12-19. Sequence census methods for functional genomics in NATURE METHODS
  • 2013-04-25. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions in GENOME BIOLOGY
  • 2010. Estimation of Alternative Splicing isoform Frequencies from RNA-Seq Data in ALGORITHMS IN BIOINFORMATICS
  • 2013-09-15. Transcriptome and genome sequencing uncovers functional variation in humans in NATURE
  • 2008-05-30. Mapping and quantifying mammalian transcriptomes by RNA-Seq in NATURE METHODS
  • 2010-05-02. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation in NATURE BIOTECHNOLOGY
  • 2011-03-16. Improving RNA-Seq expression estimates by correcting for fragment bias in GENOME BIOLOGY
  • 2011-11-08. How to apply de Bruijn graphs to genome assembly in NATURE BIOTECHNOLOGY
  • 2014-08-24. A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium in NATURE BIOTECHNOLOGY
  • 2015-09-03. EMSAR: estimation of transcript abundance from RNA-seq data by mappability-based segmentation and reclustering in BMC BIOINFORMATICS
  • Journal

    TITLE

    Nature Biotechnology

    ISSUE

    5

    VOLUME

    34

    Related Patents

    Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nbt.3519

    DOI

    http://dx.doi.org/10.1038/nbt.3519

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1024493480

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/27043002


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