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Sökning: WFRF:(Ranefall Petter 1968 ) > RegiSTORM :

LIBRIS Formathandbok  (Information om MARC21)
FältnamnIndikatorerMetadata
00004927naa a2200481 4500
001oai:DiVA.org:uu-506972
003SwePub
008230703s2023 | |||||||||||000 ||eng|
009oai:prod.swepub.kib.ki.se:152934616
0247 a https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-5069722 URI
0247 a https://doi.org/10.1186/s12859-023-05320-12 DOI
0247 a http://kipublications.ki.se/Default.aspx?queryparsed=id:1529346162 URI
040 a (SwePub)uud (SwePub)ki
041 a engb eng
042 9 SwePub
072 7a ref2 swepub-contenttype
072 7a art2 swepub-publicationtype
1001 a ovrebo, Oysteinu Imperial Coll London, Dept Mat, London SW7 2AZ, England.;Imperial Coll London, Dept Bioengn, London SW7 2AZ, England.;Imperial Coll London, Inst Biomed Engn, London SW7 2AZ, England.4 aut
2451 0a RegiSTORM :b channel registration for multi-color stochastic optical reconstruction microscopy
264 1b BMC,c 2023
338 a electronic2 rdacarrier
520 a Background: Stochastic optical reconstruction microscopy (STORM), a super-resolution microscopy technique based on single-molecule localizations, has become popular to characterize sub-diffraction limit targets. However, due to lengthy image acquisition, STORM recordings are prone to sample drift. Existing cross-correlation or fiducial marker-based algorithms allow correcting the drift within each channel, but misalignment between channels remains due to interchannel drift accumulating during sequential channel acquisition. This is a major drawback in multi-color STORM, a technique of utmost importance for the characterization of various biological interactions.Results: We developed RegiSTORM, a software for reducing channel misalignment by accurately registering STORM channels utilizing fiducial markers in the sample. RegiSTORM identifies fiducials from the STORM localization data based on their non-blinking nature and uses them as landmarks for channel registration. We first demonstrated accurate registration on recordings of fiducials only, as evidenced by significantly reduced target registration error with all the tested channel combinations. Next, we validated the performance in a more practically relevant setup on cells multi-stained for tubulin. Finally, we showed that RegiSTORM successfully registers two-color STORM recordings of cargo-loaded lipid nanoparticles without fiducials, demonstrating the broader applicability of this software.Conclusions: The developed RegiSTORM software was demonstrated to be able to accurately register multiple STORM channels and is freely available as open-source (MIT license) at https://github.com/oystein676/RegiSTORM.git and https://doi.org/10.5281/ zenodo.5509861 (archived), and runs as a standalone executable (Windows) or via Python (Mac OS, Linux).
650 7a NATURVETENSKAPx Data- och informationsvetenskapx Datorseende och robotik0 (SwePub)102072 hsv//swe
650 7a NATURAL SCIENCESx Computer and Information Sciencesx Computer Vision and Robotics0 (SwePub)102072 hsv//eng
653 a Super-resolution microscopy
653 a Stochastic optical reconstruction microscopy
653 a Single-molecule localization microscopy
653 a Registration
653 a Multi-channel
653 a Image analysis tool
653 a Software
7001 a Ojansivu, Miinau Karolinska Inst, Dept Med Biochem & Biophys, S-17177 Stockholm, Sweden.4 aut
7001 a Kartasalo, Kimmou Karolinska Inst, Dept Med Epidemiol & Biostat, S-17177 Stockholm, Sweden.4 aut
7001 a Barriga, Hanna M. G.u Karolinska Inst, Dept Med Biochem & Biophys, S-17177 Stockholm, Sweden.4 aut
7001 a Ranefall, Petter,d 1968-u Uppsala universitet,Bildanalys och människa-datorinteraktion,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)peran517
7001 a Holme, Margaret N.u Karolinska Inst, Dept Med Biochem & Biophys, S-17177 Stockholm, Sweden.4 aut
7001 a Stevens, Molly M.u Imperial Coll London, Dept Mat, London SW7 2AZ, England.;Imperial Coll London, Dept Bioengn, London SW7 2AZ, England.;Imperial Coll London, Inst Biomed Engn, London SW7 2AZ, England.;Karolinska Inst, Dept Med Biochem & Biophys, S-17177 Stockholm, Sweden.4 aut
7102 a Imperial Coll London, Dept Mat, London SW7 2AZ, England.;Imperial Coll London, Dept Bioengn, London SW7 2AZ, England.;Imperial Coll London, Inst Biomed Engn, London SW7 2AZ, England.b Karolinska Inst, Dept Med Biochem & Biophys, S-17177 Stockholm, Sweden.4 org
7730 t BMC Bioinformaticsd : BMCg 24:1q 24:1x 1471-2105
8564 u https://uu.diva-portal.org/smash/get/diva2:1778965/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-506972
8564 8u https://doi.org/10.1186/s12859-023-05320-1
8564 8u http://kipublications.ki.se/Default.aspx?queryparsed=id:152934616

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