Logo des Repositoriums

Datenbank Spektrum 15(3) - November 2015

https://dl.gi.de/handle/20.500.12116/11568
Auflistung nach:

Auflistung Datenbank Spektrum 15(3) - November 2015 nach Autor:in "Cijvat, Robin"

1 - 1 von 1
  • Zeitschriftenartikel
    Genome sequence analysis with MonetDB
    (Datenbank-Spektrum: Vol. 15, No. 3, 2015) Cijvat, Robin; Manegold, Stefan; Kersten, Martin; Klau, Gunnar W.; Schönhuth, Alexander; Marschall, Tobias; Zhang, Ying
    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 easy, flexible, and 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 virusgenomes.