ChiTaH: a fast and accurate tool for identifying known human chimeric sequences from high-throughput sequencing data.Fusion genes or chimeras typically comprise sequences from two different genes.  These shortcomings motivated us to develop the first 'reference-based' approach termed ChiTaH (Chimeric Transcripts from High-throughput sequencing data).  ChiTaH uses 43,466 non-redundant known human chimeras as a reference database to map sequencing reads and to accurately identify chimeric reads.  We benchmarked ChiTaH and four other methods to identify human chimeras, leveraging both simulated and real sequencing datasets.  ChiTaH was found to be the most accurate and fastest method for identifying known human chimeras from simulated and sequencing datasets.  Moreover, especially ChiTaH uncovered heterogeneity of the BCR-ABL1 chimera in both bulk and single-cells of the K-562 cell line, which was confirmed experimentally.
ChiTaH
ChiTaH: a fast and accurate tool for identifying known human chimeric sequences from high-throughput sequencing data.Fusion genes or chimeras typically comprise sequences from two different genes.  These shortcomings motivated us to develop the first 'reference-based' approach termed ChiTaH (Chimeric Transcripts from High-throughput sequencing data).  ChiTaH uses 43,466 non-redundant known human chimeras as a reference database to map sequencing reads and to accurately identify chimeric reads.  We benchmarked ChiTaH and four other methods to identify human chimeras, leveraging both simulated and real sequencing datasets.  ChiTaH was found to be the most accurate and fastest method for identifying known human chimeras from simulated and sequencing datasets.  Moreover, especially ChiTaH uncovered heterogeneity of the BCR-ABL1 chimera in both bulk and single-cells of the K-562 cell line, which was confirmed experimentally.
ChiTaH