SEQprocess: A pipeline tool for processing of next generation sequencing data with modularized customization

Joint Event on 10^th International Conference on Genomics and Molecular Biology & 6^th International Conference on Integrative Biology

May 21-23, 2018 Barcelona, Spain

Taewoon Joo, Ji Hye Choi, Ji Hye Lee, So Eun Park, Youngsic Jeon, Sae Hoon Jung and Hyun Goo Woo

Ajou University School of Medicine, South Korea
Yonsei University College of Medicine, South Korea

Posters & Accepted Abstracts: J Mol Genet Med

Abstract :

Next-Generation Sequencing (NGS) technology is now widely used in biomedical research field. The application of NGS technologies includes the identification sequence variants of DNA or RNA and the quantitation of RNA abundances or DNA copy numbers. Previously several softwares for NGS data processing pipelines have been released. However, the softwares do not cover the recently updated GDC pipelines which is a standardized pipeline used in the processing of the TCGA data. Moreover, there is no comprehensive tools that handle the recent clinical applications of NGS technology such as cell-free DNA, small RNA, and exosomal RNA sequencing data. Here, we developed a SEQprocess that can provide NGS processing pipelines covering the GDC pipeline as well as the new data for clinical applications. SEQprocess is implemented in an R program to provide an automated and user friendly interfaces. SEQprocess also provide a flexible customization framework by modularizing the multiple NGS processing steps that can be easily included or excluded in the process. In addition, SEQprocess automatically generate a report that summarize the processing steps, which will ensure reproducibility of the NGS data analysis.

Biography :

Ji Hye Choi has completed her Doctor of Science Degree majoring in Biomedical Informatics and Convergence Medicine from Ajou University of Medicine, Suwon, Republic of South Korea in August 2017 and currently is a Research Fellow at the same university. Her research interests are Genomics, Bioinformatics and System Biology. She has authored more than five papers in reputed journals including Cancer Research, Nature communication, Experimental & Molecular Medicine, Oncotarget and BMC Bioinformatics.
Email:jtw921222@gmail.com