Mapping the RNA-Seq trash bin
نویسندگان
چکیده
منابع مشابه
Mapping the RNA-Seq trash bin: unusual transcripts in prokaryotic transcriptome sequencing data.
Prokaryotic transcripts constitute almost always uninterrupted intervals when mapped back to the genome. Split reads, i.e., RNA-seq reads consisting of parts that only map to discontiguous loci, are thus disregarded in most analysis pipelines. There are, however, some well-known exceptions, in particular, tRNA splicing and circularized small RNAs in Archaea as well as self-splicing introns. Her...
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Bulked segregant analysis (BSA) is an efficient method to rapidly and efficiently map genes responsible for mutant phenotypes. BSA requires access to quantitative genetic markers that are polymorphic in the mapping population. We have developed a modification of BSA (BSR-Seq) that makes use of RNA-Seq reads to efficiently map genes even in populations for which no polymorphic markers have been ...
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Recently, we presented ContextMap (Bonfert et al., 2012), a novel approach to mapping RNA-seq reads based on the concept of a so-called read context. A context is defined as a set of reads all originating from the same stretch of the genome, indicating that they all correspond to transcripts of the same gene. The original implementation we presented was focused on refining initial mappings prov...
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ژورنال
عنوان ژورنال: RNA Biology
سال: 2013
ISSN: 1547-6286,1555-8584
DOI: 10.4161/rna.24972