A high quality Arabidopsis transcriptome for accurate transcript-level analysis of alternative splicing
نویسندگان
چکیده
منابع مشابه
A high quality Arabidopsis transcriptome for accurate transcript-level analysis of alternative splicing
Alternative splicing generates multiple transcript and protein isoforms from the same gene and thus is important in gene expression regulation. To date, RNA-sequencing (RNA-seq) is the standard method for quantifying changes in alternative splicing on a genome-wide scale. Understanding the current limitations of RNA-seq is crucial for reliable analysis and the lack of high quality, comprehensiv...
متن کاملAtRTD2: A Reference Transcript Dataset for accurate quantification of alternative splicing and expression changes in Arabidopsis thaliana RNA-seq data
Background Alternative splicing is the major post-transcriptional mechanism by which gene expression is regulated and affects a wide range of processes and responses in most eukaryotic organisms. RNA-sequencing (RNA-seq) can generate genome-wide quantification of individual transcript isoforms to identify changes in expression and alternative splicing. RNAseq is an essential modern tool but its...
متن کاملRASA: Robust Alternative Splicing Analysis for Human Transcriptome Arrays
Human transcriptome arrays (HTA) have recently been developed for high-throughput alternative splicing analysis by measuring signals not only from exons but also from exon-exon junctions. Effective use of these rich signals requires the development of computational methods for better gene and alternative splicing analyses. In this work, we introduce a computational method, Robust Alternative Sp...
متن کاملTranscriptome analysis indicates considerable divergence in alternative splicing between duplicated genes in Arabidopsis thaliana.
Gene and genome duplication events have created a large number of new genes in plants that can diverge by evolving new expression profiles and functions (neofunctionalization) or dividing extant ones (subfunctionalization). Alternative splicing (AS) generates multiple types of mRNA from a single type of pre-mRNA by differential intron splicing. It can result in new protein isoforms or downregul...
متن کاملUnconstrained mining of transcript data reveals increased alternative splicing complexity in the human transcriptome
Mining massive amounts of transcript data for alternative splicing information is paramount to help understand how the maturation of RNA regulates gene expression. We developed an algorithm to cluster transcript data to annotated genes to detect unannotated splice variants. A higher number of alternatively spliced genes and isoforms were found compared to other alternative splicing databases. C...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2017
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkx267