Protein-Protein Docking Using Starting Points Based On Structural Homology

Protein-Protein Docking Using Starting Points Based On Structural Homology

Protein-protein interactions build large networks which are essential in understanding complex diseases. Due to limitations of experimental methodology there are problems with large amounts of false negative and positive interactions; and a large gap in the amount of known interactions and structura...

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Bibliographic Details
Main Author: Hyvönen, Martin
Format: Others
Language:English
Published: Linköpings universitet, Bioinformatik 2015
Subjects:
In silico
Rosetta Dock
Bound docking
PPI
Bioinformatics
InterPred
Online Access:http://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-122016
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spelling ndltd-UPSALLA1-oai-DiVA.org-liu-1220162015-10-17T04:51:58ZProtein-Protein Docking Using Starting Points Based On Structural HomologyengHyvönen, MartinLinköpings universitet, Bioinformatik2015In silicoRosetta DockBound dockingPPIBioinformaticsInterPredProtein-protein interactions build large networks which are essential in understanding complex diseases. Due to limitations of experimental methodology there are problems with large amounts of false negative and positive interactions; and a large gap in the amount of known interactions and structurally determined interactions. By using computational methods these problems can be alleviated. In this thesis the quality of a newly developed pipeline (InterPred) were investigated for its ability to generate coarse interaction models and score them. This ability was investigated by performing docking experiments in Rosetta on models generated in InterPred. The results suggest that InterPred is highly successful in generating good starting points for docking proteins in silico and to distinguish the quality of models. Student thesisinfo:eu-repo/semantics/bachelorThesistexthttp://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-122016application/pdfinfo:eu-repo/semantics/openAccess
collection NDLTD
language English
format Others
sources NDLTD
topic In silico
Rosetta Dock
Bound docking
PPI
Bioinformatics
InterPred
spellingShingle In silico
Rosetta Dock
Bound docking
PPI
Bioinformatics
InterPred
Hyvönen, Martin
Protein-Protein Docking Using Starting Points Based On Structural Homology
description Protein-protein interactions build large networks which are essential in understanding complex diseases. Due to limitations of experimental methodology there are problems with large amounts of false negative and positive interactions; and a large gap in the amount of known interactions and structurally determined interactions. By using computational methods these problems can be alleviated. In this thesis the quality of a newly developed pipeline (InterPred) were investigated for its ability to generate coarse interaction models and score them. This ability was investigated by performing docking experiments in Rosetta on models generated in InterPred. The results suggest that InterPred is highly successful in generating good starting points for docking proteins in silico and to distinguish the quality of models.
author Hyvönen, Martin
author_facet Hyvönen, Martin
author_sort Hyvönen, Martin
title Protein-Protein Docking Using Starting Points Based On Structural Homology
title_short Protein-Protein Docking Using Starting Points Based On Structural Homology
title_full Protein-Protein Docking Using Starting Points Based On Structural Homology
title_fullStr Protein-Protein Docking Using Starting Points Based On Structural Homology
title_full_unstemmed Protein-Protein Docking Using Starting Points Based On Structural Homology
title_sort protein-protein docking using starting points based on structural homology
publisher Linköpings universitet, Bioinformatik
publishDate 2015
url http://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-122016
work_keys_str_mv AT hyvonenmartin proteinproteindockingusingstartingpointsbasedonstructuralhomology
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