Diplomarbeit DIP-2311

Bibliograph.
Daten
Grieb, Melanie: Synthetische Biologie - Automatische Familienklassifikation von Proteinen.
Universität Stuttgart, Fakultät Informatik, Elektrotechnik und Informationstechnik, Diplomarbeit Nr. 2311 (2005).
59 Seiten, englisch.
CR-Klassif.J.3 (Life and Medical Sciences)
KeywordsANACIN; bioinformatics; bioinformatik; protein; synthetic biology; synthetische biologie; sequenz; sequence; datenbanken; databases; model
Kurzfassung

It is expensive to experimentally determine the sequence, structure and function dependencies of a protein. Therefore, information is transferred from known to unknown proteins using the recognition of similar protein characteristics. Due to the decreasing cost of protein synthesis (currently 1.5$ per nucleotide, 0.1$ per nucleotide in the near future), the future goal is to use this knowledge to completely predict the function of a specific protein sequence for a non-experimental de novo design of proteins. Family classification plays a key role in finding the solution to that problem. Similarities in fold but not sequence are less likely to reveal common function than sequence similarity, which generally infers common structure. The family classification approach used by protein family databases is based on sequence similarity. Our research is based on the different approach of classifying proteins in families using amino acid annotations. In previous work, the transfer of annotations to different sequences in a protein family and the family classification were done manually. The duration of manual analysis was 3 months per database. In this thesis ANACIN, a software which automates annotation transfer and family classification, was created. With this software, the annotation accuracy could be improved compared to manual annotation. The analysis of the results of automated protein family classification led to the discovery of new protein families. The time for complete analysis was reduced to two days of computation and one day for the manual interpretation of the results.

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Institut für technische Biochemie
Zugriff auf studentische Arbeiten aufgrund vorherrschender Datenschutzbestimmungen nur innerhalb der Fakultät möglich
KontaktEmail an melanie@melaniegrieb.de
Abteilung(en)Universität Stuttgart, Institut für Parallele und Verteilte Systeme, Simulation großer Systeme
Projekt(e)Synthetische Biologie (Institut für technische Biochemie)
Eingabedatum28. August 2005
   Publ. Informatik