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A statistical approach to detect protein complexes at X-ray free electron laser facilities
Uppsala universitet, Teknisk-naturvetenskapliga vetenskapsområdet, Biologiska sektionen, Institutionen för cell- och molekylärbiologi, Molekylär biofysik.
Uppsala universitet, Teknisk-naturvetenskapliga vetenskapsområdet, Biologiska sektionen, Institutionen för cell- och molekylärbiologi, Molekylär biofysik.
Uppsala universitet, Teknisk-naturvetenskapliga vetenskapsområdet, Fysiska sektionen, Institutionen för fysik och astronomi, Molekyl- och kondenserade materiens fysik.ORCID-id: 0000-0001-7328-0400
Uppsala universitet, Teknisk-naturvetenskapliga vetenskapsområdet, Biologiska sektionen, Institutionen för cell- och molekylärbiologi, Molekylär biofysik.ORCID-id: 0000-0003-1251-0465
Vise andre og tillknytning
2018 (engelsk)Inngår i: Communications Physics, E-ISSN 2399-3650, Vol. 1, s. 92:1-11, artikkel-id 92Artikkel i tidsskrift (Fagfellevurdert) Published
sted, utgiver, år, opplag, sider
2018. Vol. 1, s. 92:1-11, artikkel-id 92
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Identifikatorer
URN: urn:nbn:se:uu:diva-369876DOI: 10.1038/s42005-018-0092-6ISI: 000452676300003OAI: oai:DiVA.org:uu-369876DiVA, id: diva2:1271416
Prosjekter
eSSENCETilgjengelig fra: 2018-12-07 Laget: 2018-12-17 Sist oppdatert: 2019-05-06bibliografisk kontrollert
Inngår i avhandling
1. Statistical processing of Flash X-ray Imaging of protein complexes
Åpne denne publikasjonen i ny fane eller vindu >>Statistical processing of Flash X-ray Imaging of protein complexes
2019 (engelsk)Doktoravhandling, med artikler (Annet vitenskapelig)
Abstract [en]

Flash X-ray Imaging (FXI) at X-ray Free Electron Lasers (XFELs) is a promising technique that permits the investigation of the 3D structure of molecules without the need for crystallization, by diffracting on single individual sample particles.

In the past few years, some success has been achieved by using FXI on quite large biological complexes (40 nm-1 μm in diameter size). Still, the desired dream-goal of imaging a single individual of a molecule or a protein complex (<15 nm in diameter size) has not been reached yet. The main issue that prevented us from a complete success has been the low signal strength, almost comparable to background noise. That is particularly true for experiments performed at the Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS).

In this thesis, we provide a brief review of the CXI instrument (focusing on experiments there performed) and present a statistical method to deal with low signal-to-noise ratios. We take into account a variety of biological particles, showing the benefits of estimating a background model from sample data and using that for processing said data. Moreover, we present the results of some computer simulations in order to explore the limits and potentials of the proposed approach.

Last, we show another method (named COACS) that, being fed with the previous findings from the background model, helps obtaining clearer results in the phase retrieval problem.

sted, utgiver, år, opplag, sider
Uppsala: Acta Universitatis Upsaliensis, 2019. s. 88
Serie
Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology, ISSN 1651-6214 ; 1764
Emneord
X-ray, XFEL, single particle, hit-finder, statistical hit-finder, single protein, protein complex, RNA polymerase II, FEL, free-electron laser, FXI, Flash X-ray Imaging, CXI, CSPAD, x-ray imaging, COACS
HSV kategori
Forskningsprogram
Fysik med inriktning mot biofysik
Identifikatorer
urn:nbn:se:uu:diva-372987 (URN)978-91-513-0554-7 (ISBN)
Disputas
2019-03-06, C8:301, BMC, Husargatan 3, Uppsala, 09:15 (engelsk)
Opponent
Veileder
Tilgjengelig fra: 2019-02-08 Laget: 2019-01-14 Sist oppdatert: 2019-02-18

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