核糖核酸
参考基因
从头转录组组装
基因表达谱
基因表达
深度测序
小桶
基因组
RNA提取
DNA微阵列
遗传学
抄写(语言学)
参考基因组
顺序装配
DNA测序
生物信息学
微阵列
作者
Max Coulter,Juan Carlos Entizne,Wenbin Guo,Micha Bayer,Ronja Wonneberger,Linda Milne,Miriam Schreiber,Allison Haaning,Gary J. Muehlbauer,Nicola McCallum,John L. Fuller,Craig G. Simpson,Nils Stein,John W. S. Brown,Robbie Waugh,Runxuan Zhang
标识
DOI:10.1101/2021.09.10.459729
摘要
ABSTRACT Accurate characterization of splice junctions as well as transcription start and end sites in reference transcriptomes allows precise quantification of transcripts from RNA-seq data and enable detailed investigations of transcriptional and post-transcriptional regulation. Using novel computational methods and a combination of PacBio Iso-seq and Illumina short read sequences from 20 diverse tissues and conditions, we generated a comprehensive and highly resolved barley reference transcript dataset (RTD) from the European 2-row spring barley cultivar Barke (BaRTv2.18). Stringent and thorough filtering was carried out to maintain the quality and accuracy of the splice junctions and transcript start and end sites. BaRTv2.18 shows increased transcript diversity and completeness compared to an earlier version, BaRTv1.0. The accuracy of transcript level quantification, splice junctions and transcript start and end sites has been validated extensively using parallel technologies and analysis, including high resolution RT PCR and 5’ RACE. BaRTv2.18 contains 39,434 genes and 148,260 transcripts, representing the most comprehensive and resolved reference transcriptome in barley to date. It provides an important and high-quality resource for advanced transcriptomic analyses, including both transcriptional and post-transcriptional regulation, with exceptional resolution and precision.
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