We are analyzing https://link.springer.com/chapter/10.1007/978-3-642-15294-8_17.

Title:
Estimation of Alternative Splicing isoform Frequencies from RNA-Seq Data | SpringerLink
Description:
In this paper we present a novel expectation-maximization algorithm for inference of alternative splicing isoform frequencies from high-throughput transcriptome sequencing (RNA-Seq) data. Our algorithm exploits disambiguation information provided by the distribution...
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28 years and 1 months (reg. 1997-05-29).

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Keywords {🔍}

google, scholar, pubmed, article, rnaseq, bioinformatics, data, isoform, cas, central, information, science, springer, paper, alternative, heidelberg, privacy, cookies, content, publish, estimation, splicing, computer, transcriptome, expression, download, genome, chapter, nature, university, research, search, algorithms, conference, algorithm, sequencing, experiments, gene, preview, access, short, vol, personal, log, journal, frequencies, wabi, nicolae, mangul, măndoiu,

Topics {✒️}

article google scholar month download article/chapter high-throughput transcriptome sequencing read pairing information synthetic datasets show georgia state university rna-seq data privacy choices/manage cookies device instant download short sequence reads rna-seq experiments gene alternative splicing exact transcriptome reconstruction sequencing library preparation conference paper algorithms short dna sequences expectation-maximization algorithm download preview pdf read mapping uncertainty mammalian gene collection alternative isoform regulation european economic area marius nicolae insert sizes generated base quality scores random hexamer priming memory-efficient alignment discovering splice junctions exon expression levels conditions privacy policy serghei mangul resolving deconvolution ambiguity accepting optional cookies quantifying mammalian transcriptomes homologous genes computer science human tissue transcriptomes nsf awards iis-0546457 paper cite main content log rna-seq paper nicolae journal finder publish pdf read nature methods chapter usd 29 genome research 19 permissions reprints personal data bmc bioinformatics 10

Schema {🗺️}

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      headline:Estimation of Alternative Splicing isoform Frequencies from RNA-Seq Data
      pageEnd:214
      pageStart:202
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      genre:
         Computer Science
         Computer Science (R0)
      isPartOf:
         name:Algorithms in Bioinformatics
         isbn:
            978-3-642-15294-8
            978-3-642-15293-1
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         name:Springer Berlin Heidelberg
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            type:ImageObject
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      author:
            name:Marius Nicolae
            affiliation:
                  name:University of Connecticut
                  address:
                     name:Computer Science & Engineering Department, University of Connecticut, Storrs, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Serghei Mangul
            affiliation:
                  name:Georgia State University, University Plaza
                  address:
                     name:Computer Science Department, Georgia State University, University Plaza, Georgia
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Ion Măndoiu
            affiliation:
                  name:University of Connecticut
                  address:
                     name:Computer Science & Engineering Department, University of Connecticut, Storrs, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Alex Zelikovsky
            affiliation:
                  name:Georgia State University, University Plaza
                  address:
                     name:Computer Science Department, Georgia State University, University Plaza, Georgia
                     type:PostalAddress
                  type:Organization
            type:Person
      keywords:Read Length, Error Fraction, Line Sweep, Base Quality Score, Sequencing Library Preparation
      description:In this paper we present a novel expectation-maximization algorithm for inference of alternative splicing isoform frequencies from high-throughput transcriptome sequencing (RNA-Seq) data. Our algorithm exploits disambiguation information provided by the distribution of insert sizes generated during sequencing library preparation, and takes advantage of base quality scores, strand and read pairing information if available. Empirical experiments on synthetic datasets show that the algorithm significantly outperforms existing methods of isoform and gene expression level estimation from RNA-Seq data. The Java implementation of IsoEM is available at http://dna.engr.uconn.edu/software/IsoEM/.
      datePublished:2010
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Book:
      name:Algorithms in Bioinformatics
      isbn:
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      name:Springer Berlin Heidelberg
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      name:University of Connecticut
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               name:Computer Science & Engineering Department, University of Connecticut, Storrs, USA
               type:PostalAddress
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      name:Serghei Mangul
      affiliation:
            name:Georgia State University, University Plaza
            address:
               name:Computer Science Department, Georgia State University, University Plaza, Georgia
               type:PostalAddress
            type:Organization
      name:Ion Măndoiu
      affiliation:
            name:University of Connecticut
            address:
               name:Computer Science & Engineering Department, University of Connecticut, Storrs, USA
               type:PostalAddress
            type:Organization
      name:Alex Zelikovsky
      affiliation:
            name:Georgia State University, University Plaza
            address:
               name:Computer Science Department, Georgia State University, University Plaza, Georgia
               type:PostalAddress
            type:Organization
PostalAddress:
      name:Computer Science & Engineering Department, University of Connecticut, Storrs, USA
      name:Computer Science Department, Georgia State University, University Plaza, Georgia
      name:Computer Science & Engineering Department, University of Connecticut, Storrs, USA
      name:Computer Science Department, Georgia State University, University Plaza, Georgia
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