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The development of RNA sequencing (RNA-Seq) makes it possible for us to measure transcription at an unprecedented precision and throughput. However, challenges remain in understanding the source and distribution of the reads, modeling the transcript abundance and developing efficient computational methods. In this article, we develop a method to deal with the isoform expression estimation problem. The count of reads falling into a locus on the genome annotated with multiple isoforms is modeleddoi:10.1093/bioinformatics/btp113 pmid:19244387 pmcid:PMC2666817 fatcat:lwruvo4g5jgmtkgssgbgap7liy