Development of a database and its use in the Investigation of Interferences in SRM assay design

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dc.contributor.advisor Bessant, Conrad Dokpesi, Oshiobugie 2015-09-10T15:27:03Z 2015-09-10T15:27:03Z 2013-04
dc.description.abstract Selected Reaction Monitoring (SRM), is a form of mass spectrometry that guarantees high throughput and also a high level of selectivity and specificity. Performing SRM experiments requires the development of assays to aid in peptide identification. This is a time consuming and expensive process thus biological researchers have come up with bioinformatics solutions for the design of SRM assay. The accuracy of these bioinformatics methods is quite high and the next step is to optimise the process by tackling the interference issue. As various analytes may have the same signals within an SRM experiment and thus interfere with each other’s signals, different solutions are being derived to tackle the issue. This thesis describes the development of a SRM transition database to store peptide and transition data, software to populate the database and also software to retrieve the data from the database. Finally the database is tested with the MRMaid transitions for the human proteome which were mined from the PRIDE database and the results analysed to investigate the transition interference issue. The database currently contains data for 20220 proteins and approximately 870,000 tryptic peptides from the human proteome. en_UK
dc.language.iso en en_UK
dc.publisher Cranfield University en_UK
dc.rights © Cranfield University 2013. All rights reserved. No part of this publication may be reproduced without the written permission of the copyright owner. en_UK
dc.subject Bioinformatics en_UK
dc.subject Proteomics en_UK
dc.subject Peptides en_UK
dc.subject Transitions en_UK
dc.subject Spectrometry en_UK
dc.title Development of a database and its use in the Investigation of Interferences in SRM assay design en_UK
dc.type Thesis or dissertation en_UK
dc.type.qualificationlevel Masters en_UK
dc.type.qualificationname MSc by Research en_UK

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