[ 675INSYISBK18 ] KV Information Systems for Bioinformatics

Workload Education level Study areas Responsible person Hours per week Coordinating university
6 ECTS B3 - Bachelor's programme 3. year (*)Bioinformatik Werner Retschitzegger 4 hpw Johannes Kepler University Linz
Detailed information
Original study plan Bachelor's programme Bioinformatics 2018W
Objectives Information Systems (IFS) play a central role in bioinformatics, not least due to the massive and constantly growing amount of data. The spatio-thematic fragmentation of the world-wide bioinformatic research community, however, led to a strong specilisation of existing information systems. Resolving current bioinformtic research questions currently requires access of 5 to 10 different information systems. With this lecture, graduates gain knowledge about existing information systems in bioinformatic as well as about current concepts and technologies for their integration. Students are especially capable of employing diverse XML technologies for representing and integrating existing bioinformatic data.
Exercise: Deeper study of the topics of the lecture on basis of exercises
Subject Lecture:

* Overview about existing information systems in bioinformatics
(requirements and categories)
* Dimensions of information integration and integration architectures
(Distribution, Autonomy and Heterogeneity; Federated DB, Data Warehouses, Mediator-based DB, Peer DB)
* XML-technologies for bioinformatcs
(XML Schema, XSLT, XQuery, XML und DB)
* Schema- und Metadatamanagement in integrated information systems
(Matching- and Mapping-techniques)
* Search in existing bioinformatic information systems
* Conceptual modeling of a bioinformatics DB in UML and generation of logical schemata - relational DB schema and XML Schema
* Integration of data into the DB schema based on heterogenous data sources and XML-based queries
* Integration of further data sources (e.g., SwissProt) using mediators
* Data exhange using XML, especially resolving heterogneities using matching and mapping approaches
Criteria for evaluation - Exam
- Exercises
- Oral participation
Methods - Lecture
- Exercises
Language German or English, depending on the participants
Study material Informationsintegration, Ulf Leser/Felix Naumann, dpunkt.verlag, ISBN-10 3-89864-400-6, 2006
Changing subject? No
Further information
Corresponding lecture 675SEISISBK16: KV Information Systems for Bioinformatics (6 ECTS)
On-site course
Maximum number of participants 35
Assignment procedure Direct assignment