Stupnikov Alexey, Bezuglov Vitaly, Skakov Ivan, Shtratnikova Victoria, Pilsner J Richard, Suvorov Alexander, Sergeyev Oleg
Moscow Institute of Physics and Technology, 141701 Moscow, Russia.
National Medical Research Center for Endocrinology, 115478 Moscow, Russia.
Noncoding RNA. 2022 May 2;8(3):30. doi: 10.3390/ncrna8030030.
Transcriptomics analysis of various small RNA (sRNA) biotypes is a new and rapidly developing field. Annotations for microRNAs, tRNAs, piRNAs and rRNAs contain information on transcript sequences and loci that is vital for downstream analyses. Several databases have been established to provide this type of data for specific RNA biotypes. However, these sources often contain data in different formats, which makes the bulk analysis of several sRNA biotypes in a single pipeline challenging. Information on some transcripts may be incomplete or conflicting with other entries. To overcome these challenges, we introduce ITAS, or Integrated Transcript Annotation for Small RNA, a filtered, corrected and integrated transcript annotation containing information on several types of small RNAs, including tRNA-derived small RNA, for several species (, , , , ). ITAS is presented in a format applicable for the vast majority of bioinformatic transcriptomics analysis, and it was tested in several case studies for human-derived data against existing alternative databases.
对各种小RNA（sRNA）生物型进行转录组学分析是一个新兴且发展迅速的领域。微小RNA、转运RNA、Piwi相互作用RNA和核糖体RNA的注释包含了对下游分析至关重要的转录本序列和基因座信息。已经建立了几个数据库来为特定的RNA生物型提供此类数据。然而，这些数据源通常包含不同格式的数据，这使得在单个流程中对几种sRNA生物型进行批量分析具有挑战性。一些转录本的信息可能不完整或与其他条目冲突。为了克服这些挑战，我们引入了ITAS，即小RNA综合转录本注释，它是一种经过筛选、校正和整合的转录本注释，包含了几种物种（、、、、）的几种类型小RNA的信息，包括tRNA衍生的小RNA。ITAS以适用于绝大多数生物信息学转录组学分析的格式呈现，并在几个针对人类数据的案例研究中与现有的替代数据库进行了测试。
