Genomics

Dataset Information

118

Arabidopsis thaliana


ABSTRACT: 2-week-old Arabidopsis seedlings (Columbia ecotype)

ORGANISM(S): Arabidopsis thaliana  

PROVIDER: PRJNA147283 | ENA |

REPOSITORIES: ENA

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Publications

SpliceGrapher: detecting patterns of alternative splicing from RNA-Seq data in the context of gene models and EST data.

Rogers Mark F MF   Thomas Julie J   Reddy Anireddy Sn AS   Ben-Hur Asa A  

Genome biology 20120131 1


We propose a method for predicting splice graphs that enhances curated gene models using evidence from RNA-Seq and EST alignments. Results obtained using RNA-Seq experiments in Arabidopsis thaliana show that predictions made by our SpliceGrapher method are more consistent with current gene models than predictions made by TAU and Cufflinks. Furthermore, analysis of plant and human data indicates that the machine learning approach used by SpliceGrapher is useful for discriminating between real and  ...[more]

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