Development of novel high resolution mass spectrometry proteomic workflows to support the investigation of protein expression of dendritic cells during anti-viral response

Diplôme Thèse Development of novel high resolution mass spectrometry proteomic workflows to support the investigation of protein expression of dendritic cells during anti-viral response eng 2015-12-04 author Zhang Ying 766234 director Varesio Emmanuel 30230 director Hopfgartner Gerard 0000-0002-9087-606X 31827 10.13097/archive-ouverte/unige:80045 urn:nbn:ch:unige-800451 Sc. 4870 Mass spectrometry (MS) based proteomic studies on dendritic cells (DCs) facilitate the understanding of the molecular processes occurred in the cells. In order to support the investigation of DC protein expression during anti-viral response to HIV-1 attack, three key steps, sample preparation, MS data acquisition and data analysis, in shotgun proteomic workflow were investigated. The final established high resolution MS proteomic workflow employed a gel-free and MS-friendly sample preparation procedure and an optimized data-dependent acquisition (DDA) method implementing the concept of exclusion/inclusion list for enhanced protein identification and a variable window strategy in SWATH MS data acquisition for improved proteomic qualitative and quantitative analysis. Comparison of the proteomic profiles of DCs after different treatments revealed 139 proteins involved in the viral-restrictive state established by bacterial lipopolysaccharide (LPS) and 16 and 23 novel candidate proteins that are putatively associated with the Vpx enhanced HIV-1 infection of immature and mature DCs respectively. High resolution mass spectrometry Proteomics Data-dependent acquisition SWATH Dendritic cells Anti-viral response Dewey 615 31 Section des sciences pharmaceutiques 17 false 886 Spectrométrie de masse du vivant 4f96eb00-fbf5-4d1d-9b7c-70c5591fc83c Thesis Restricted YZ_Thesis_Final.pdf 8644261 application/pdf Private 2017-12-21 dafa38e70136ab095f3f03eb7a785153c63c2d27b4e35cc17067387c80817647 restrictedAccess Faculté des sciences / Section des sciences pharmaceutiques

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Development of novel high resolution mass spectrometry proteomic workflows to support the investigation of protein expression of dendritic cells during anti-viral response				2015	1,098	5

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Zhang, Ying