CIDANE: Comprehensive Isoform Discovery and Abundance Estimation

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• 作者：Stefan Canzar (5) (6)
  Sandro Andreotti (7)
  David Weese (7)
  Knut Reinert (7)
  Gunnar W. Klau (8)
  
  5. Center for Computational Biology ; Johns Hopkins University School of Medicine ; Baltimore ; MD ; 21205 ; USA
  6. Toyota Technological Institute at Chicago ; Chicago ; IL ; 60637 ; USA
  7. Department of Mathematics and Computer Science ; Institute of Computer Science ; Freie Universit盲t Berlin ; Arnimallee 14 ; 14195 ; Berlin ; Germany
  8. Life Sciences ; Centrum Wiskunde & Informatica (CWI) ; Science Park 123 ; 1098 XG ; Amsterdam ; The Netherlands
  
• 刊名：Lecture Notes in Computer Science
• 出版年：2015
• 出版时间：2015
• 年：2015
• 卷：9029
• 期：1
• 页码：60-61
• 全文大小：83 KB
• 参考文献：1. Boley, N, Stoiber, MH, Booth, BW, Wan, KH, Hoskins, RA, Bickel, PJ, Celniker, SE, Brown, JB (2014) Genome-guided transcript assembly by integrative analysis of RNA sequence data. Nat Biotech 32: pp. 341-346 CrossRef
  2. Friedman, J, Hastie, T, Tibshirani, R (2010) Regularization paths for generalized linear models via coordinate descent. Journal of Statistical Software 33: pp. 1-22
  3. Li, JJ, Jiang, CR, Brown, JB, Huang, H, Bickel, PJ (2011) Sparse linear modeling of next-generation mRNA sequencing (RNA-Seq) data for isoform discovery and abundance estimation. Proceedings of the National Academy of Sciences 108: pp. 19867-19872 CrossRef
  4. Li, W, Feng, J, Jiang, T (2011) IsoLasso: A LASSO regression approach to RNA-seq based transcriptome assembly. Journal of Computational Biology 18: pp. 1693-1707 CrossRef
  
• 作者单位：Research in Computational Molecular Biology
• 丛书名：978-3-319-16705-3
• 刊物类别：Computer Science
• 刊物主题：Artificial Intelligence and Robotics
  Computer Communication Networks
  Software Engineering
  Data Encryption
  Database Management
  Computation by Abstract Devices
  Algorithm Analysis and Problem Complexity
  
• 出版者：Springer Berlin / Heidelberg
• ISSN：1611-3349

文摘

High-throughput sequencing of cellular RNA (RNA-seq) allows to assess the set of all RNA molecules, the transcriptome, produced by a cell at a high resolution, under various conditions. The assembly of short sequencing reads to full-length transcripts, however, poses profound challenges to bioinformatics tools.