Accurate Adapter Information Is Crucial for Reproducibility and Reusability in Small RNA Seq Studies

A necessary pre-processing data analysis step is the removal of adapter sequences from the raw reads. While most adapter trimming tools require adapter sequence as an essential input, adapter information is often incomplete or missing. This can impact quantification of features, reproducibility of t...

Full description

Saved in:
Bibliographic Details
Published inNon-coding RNA Vol. 5; no. 4; p. 49
Main Authors Zhong, Xiangfu, Heinicke, Fatima, Lie, Benedicte A, Rayner, Simon
Format Journal Article
LanguageEnglish
Published Switzerland MDPI AG 28.10.2019
MDPI
Subjects
adapter
adapter trimming
Binding sites
Data processing
Datasets
Gene expression
microrna
MicroRNAs
ngs
Reproducibility
reusability
small rna
adapter
reproducibility
adapter trimming
microRNA
reusability
NGS
small RNA
Online AccessGet full text

Cover

More Information
Summary:A necessary pre-processing data analysis step is the removal of adapter sequences from the raw reads. While most adapter trimming tools require adapter sequence as an essential input, adapter information is often incomplete or missing. This can impact quantification of features, reproducibility of the study and might even lead to erroneous conclusions. Here, we provide examples to highlight the importance of specifying the adapter sequence by demonstrating the effect of using similar but different adapter sequences and identify additional potential sources of errors in the adapter trimming step. Finally, we propose solutions by which users can ensure their small RNA-seq data is fully annotated with adapter information.
Bibliography:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
Zhong, Xiangfu (2020) Improving the understanding of mammalian microRNAs: from annotation, isomiR and function. Doctoral thesis http://hdl.handle.net/10852/78825
ISSN:2311-553X
2311-553X
DOI:10.3390/ncrna5040049