Accuracy assessment of fusion transcript detection via read-mapping and de novo fusion transcript assembly-based methods
نویسندگان
چکیده
منابع مشابه
Clustering of Short Read Sequences for de novo Transcriptome Assembly
Given the importance of transcriptome analysis in various biological studies and considering thevast amount of whole transcriptome sequencing data, it seems necessary to develop analgorithm to assemble transcriptome data. In this study we propose an algorithm fortranscriptome assembly in the absence of a reference genome. First, the contiguous sequencesare generated using de Bruijn graph with d...
متن کاملKollector: transcript-informed, targeted de novo assembly of gene loci
Motivation Despite considerable advancements in sequencing and computing technologies, de novo assembly of whole eukaryotic genomes is still a time-consuming task that requires a significant amount of computational resources and expertise. A targeted assembly approach to perform local assembly of sequences of interest remains a valuable option for some applications. This is especially true for ...
متن کاملclustering of short read sequences for de novo transcriptome assembly
given the importance of transcriptome analysis in various biological studies and considering thevast amount of whole transcriptome sequencing data, it seems necessary to develop analgorithm to assemble transcriptome data. in this study we propose an algorithm fortranscriptome assembly in the absence of a reference genome. first, the contiguous sequencesare generated using de bruijn graph with d...
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Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA Blueprint Medicines, Cambridge, MA 02129, USA Department of Computer Science, University of California, Berkeley 94720, USA Grail, Inc., Menlo Park, CA 94025, USA National Center for Genome Analysis Support, Indiana University, Bloomington, Indiana 47405, USA Department ...
متن کاملOptimizing fusion transcript monitoring in CML.
The recently published recommendations for the harmonization of methodology for BCR-ABL fusion transcript monitoring in chronic myeloid leukemia (CML) patients responding to treatment with tyrosine kinase inhibitors are timely and pertinent for all laboratories undertaking such testing.1 The authors provide practical guidelines for laboratories to help optimize their testing and reporting proce...
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ژورنال
عنوان ژورنال: Genome Biology
سال: 2019
ISSN: 1474-760X
DOI: 10.1186/s13059-019-1842-9