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Sparse linear modeling of next-generation mRNA sequencing (RNA-Seq) data for isoform discovery and abundance estimation

Proceedings of the National Academy of Sciences of the United States of America

Dec 3, 2011

Jingyi Jessica LiPeter J Bickel

Abstract

Since the inception of next-generation mRNA sequencing (RNA-Seq) technology, various attempts have been made to utilize RNA-Seq data in assembling full-length mRNA isoforms de novo and estimating abundance of isoforms. However, for genes with more than a few exons, the problem tends to ...read more

Mentioned in this Paper

In Silico
Exons
Sequence Determinations, RNA
Log-Linear Models
Computer Programs and Programming
Protein Isoforms
Poly(A) Tail
GenBank
Drosophila melanogaster
Messenger RNA Isoforms
8
239
Paper Details
References
  • References24
  • Citations39
123
  • References24
  • Citations39
1234

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Sparse linear modeling of next-generation mRNA sequencing (RNA-Seq) data for isoform discovery and abundance estimation

Proceedings of the National Academy of Sciences of the United States of America

Dec 3, 2011

Jingyi Jessica LiPeter J Bickel

PMID: 22135461

DOI: 10.1073/pnas.1113972108

Abstract

Since the inception of next-generation mRNA sequencing (RNA-Seq) technology, various attempts have been made to utilize RNA-Seq data in assembling full-length mRNA isoforms de novo and estimating abundance of isoforms. However, for genes with more than a few exons, the problem tends to ...read more

Mentioned in this Paper

In Silico
Exons
Sequence Determinations, RNA
Log-Linear Models
Computer Programs and Programming
Protein Isoforms
Poly(A) Tail
GenBank
Drosophila melanogaster
Messenger RNA Isoforms
8
239

Similar Papers Found In These Feeds

CZI Human Cell Atlas Seed Network

The aim of the Human Cell Atlas (HCA) is to build reference maps of all human cells in order to enhance our understanding of health and disease. The Seed Networks for the HCA project aims to bring together collaborators with different areas of expertise in order to facilitate the development of the HCA. Find the latest research from members of the HCA Seed Networks here.

Related Papers

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology

IsoLasso: a LASSO regression approach to RNA-Seq based transcriptome assembly

Journal of Computational Biology : a Journal of Computational Molecular Cell BiologySeptember 29, 2011
Wei LiTao Jiang
Paper Details
References
  • References24
  • Citations39
123
  • References24
  • Citations39
1234
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