AUTHOR=He Binsheng , Zhu Rongrong , Yang Huandong , Lu Qingqing , Wang Weiwei , Song Lei , Sun Xue , Zhang Guandong , Li Shijun , Yang Jialiang , Tian Geng , Bing Pingping , Lang Jidong TITLE=Assessing the Impact of Data Preprocessing on Analyzing Next Generation Sequencing Data JOURNAL=Frontiers in Bioengineering and Biotechnology VOLUME=8 YEAR=2020 URL=https://www.frontiersin.org/journals/bioengineering-and-biotechnology/articles/10.3389/fbioe.2020.00817 DOI=10.3389/fbioe.2020.00817 ISSN=2296-4185 ABSTRACT=

Data quality control and preprocessing are often the first step in processing next-generation sequencing (NGS) data of tumors. Not only can it help us evaluate the quality of sequencing data, but it can also help us obtain high-quality data for downstream data analysis. However, by comparing data analysis results of preprocessing with Cutadapt, FastP, Trimmomatic, and raw sequencing data, we found that the frequency of mutation detection had some fluctuations and differences, and human leukocyte antigen (HLA) typing directly resulted in erroneous results. We think that our research had demonstrated the impact of data preprocessing steps on downstream data analysis results. We hope that it can promote the development or optimization of better data preprocessing methods, so that downstream information analysis can be more accurate.