CRC 1404/1: Adapting Genomic Data Analysis Workflows for Different Data Access Patterns (SP A02)


DAW runtime in distributed infrastructures if often dominated by the time required for data access and data exchange (DADE), which in turn depends on the data being analyzed, the tasks being executed, and the infrastructure on which a DAW runs. Changes in either of these aspects can quickly lead to deteriorating runtimes when a DAW is not adapted properly. Subproject A02 investigates methods that can adapt a given DAW to new input data or a different infrastructure with the goal to keep runtime low. A02 is an interdisciplinary project; it will develop its research using DAWs for large-scale genome data analysis, which are typically IO heavy and thus particularly depend on proper DADE operations. It will intensively cooperate with subproject A06 by testing its newly developed methods also on DAWs for finding structural genomic variations, and it will use the hardware abstractions developed in B01. It will be carried out by Prof. Reinert, an expert in data structures and algorithms for genomic data, and Prof. Leser, an expert in optimization of UDF-heavy DAWs.


Principal Investigators
Leser, Ulf Prof. Dr.-Ing. (Details) (Knowledge Management in Bioinformatics)

Participating external organizations

Duration of Project
Start date: 07/2020
End date: 06/2024

Research Areas
Bioinformatics and Theoretical Biology, Massively Parallel and Data-Intensive Systems, Operating, Communication, Database and Distributed Systems

Last updated on 2021-22-07 at 13:27