Print Email Facebook Twitter Computational Challenges of Next Generation Sequencing Pipelines Using Heterogeneous Systems Title Computational Challenges of Next Generation Sequencing Pipelines Using Heterogeneous Systems Author Houtgast, E.J. (TU Delft Computer Engineering; Bluebee, Rijswijk) Sima, V.M. (Bluebee, Rijswijk) Bertels, K.L.M. (TU Delft Quantum & Computer Engineering; TU Delft FTQC/Bertels Lab) Al-Ars, Z. (TU Delft Computer Engineering) Department Quantum & Computer Engineering Date 2016 Abstract We are rapidly entering the era of genomics. The dramatic cost reduction of DNA sequencing due to the introduction of Next Generation Sequencing (NGS) techniques has resulted in an exponential growth of genetics data. The amount of data generated, and its associated processing into useful information, poses serious computational challenges. Here, we give a brief introduction of NGS, show a typical NGS processing pipeline, and show the associated challenges from a computational perspective. A case study is presented where one component of the NGS processing pipeline is accelerated: BWA-MEM, the de-facto industry-standard for the mapping stage. This is a first step in achieving a fully heterogeneously accelerated NGS pipeline. Subject BWA-MEMFPGAGPUNext Generation Sequencing To reference this document use: http://resolver.tudelft.nl/uuid:217651c0-007b-4b40-8c2d-c53cbf1549fd Page numbers 1-4 Event 12th International Summer School on Advanced Computer Architecture and Compilation for High-Performance and Embedded Systems, 2016-07-10 → 2016-07-16, Fiuggi, Italy Part of collection Institutional Repository Document type abstract Rights © 2016 E.J. Houtgast, V.M. Sima, K.L.M. Bertels, Z. Al-Ars Files PDF 10611466.pdf 286.05 KB Close viewer /islandora/object/uuid:217651c0-007b-4b40-8c2d-c53cbf1549fd/datastream/OBJ/view