Next-generation sequencing (NGS) technology has led the life sciences into the big data era. Today, sequencing genomes takes little time and cost, but yields terabytes of data to be stored and analyzed. Biologists are often exposed to excessively time consuming and error-prone data management and analysis hurdles. In this paper, we propose a database management system (DBMS) based approach to accelerate and substantially simplify genome sequence analysis. We have extended MonetDB, an open-source column-based DBMS, with a BAM module, which enables \textit{easy}, \textit{flexible}, and \textit{rapid} management and analysis of sequence alignment data stored as Sequence Alignment/Map \\(SAM/BAM) files. We describe the main features of MonetDB/BAM using a case study on Ebola virus \\genomes.

,
Springer Verlag
Unspecified
Datenbank Spektrum
The SciLens-II Infrastructure, Big Data at work
Database Architectures

Cijvat, C.P, Manegold, S, Kersten, M.L, Klau, G.W, Schönhuth, A, Marschall, T, & Zhang, Y. (2015). Genome sequence analysis with MonetDB - A case study on Ebola virus diversity. Datenbank Spektrum, 15(5), 185–191.