TY - JOUR T1 - Isoform-level Ribosome Occupancy Estimation Guided by Transcript Abundance with Ribomap JF - bioRxiv DO - 10.1101/017509 SP - 017509 AU - Hao Wang AU - Joel McManus AU - Carl Kingsford Y1 - 2015/01/01 UR - http://biorxiv.org/content/early/2015/04/04/017509.abstract N2 - Ribosome profiling is a recently developed high-throughput sequencing technique that captures approximately 30 bp long ribosome-protected mRNA fragments during translation. Because of alternative splicing and repetitive sequences, a ribosome-protected read may map to many places in the transcriptome, leading to discarded or arbitrary mappings when standard approaches are used. We present a technique and software that addresses this problem by assigning reads to potential origins proportional to estimated transcript abundance. This yields a more accurate estimate of ribosome profiles compared with a naϊve mapping. Ribomap is available as open source at http://www.cs.cmu.edu/∼ckingsf/software/ribomap. ER -