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Elnaz Fazeli
Researcher at University of Turku
Publications - 17
Citations - 307
Elnaz Fazeli is an academic researcher from University of Turku. The author has contributed to research in topics: Biology & Software. The author has an hindex of 7, co-authored 14 publications receiving 196 citations. Previous affiliations of Elnaz Fazeli include Åbo Akademi University.
Papers
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Journal ArticleDOI
Ratiometric Sensing and Imaging of Intracellular pH Using Polyethylenimine-Coated Photon Upconversion Nanoprobes
Tuomas Näreoja,Tuomas Näreoja,Takahiro Deguchi,Simon Christ,Riikka Peltomaa,Neeraj Prabhakar,Elnaz Fazeli,Niina Perälä,Jessica M. Rosenholm,Riikka Arppe,Tero Soukka,Michael Schäferling +11 more
TL;DR: This upconversion nanoparticle resonance energy transfer based sensor with polyethylenimine-coating provides high colloidal stability, enhanced cellular uptake, and distribution across cellular compartments and is well suited for detection of pH changes in in vitro models with high biological background fluorescence and in in vivo applications, e.g., for the bioimaging of small animal models.
Journal ArticleDOI
Image Quality Ranking Method for Microscopy.
TL;DR: A simple method and a software tool for sorting images within a dataset, according to their relative quality, and how this method can be applied to eliminate useless out-of-focus images in a High-Content-Screening experiment is proposed.
Journal ArticleDOI
Automated cell tracking using StarDist and TrackMate.
Elnaz Fazeli,Nathan H. Roy,Gautier Follain,Romain F. Laine,Romain F. Laine,Lucas von Chamier,Pekka Hänninen,John E. Eriksson,Jean-Yves Tinevez,Guillaume Jacquemet +9 more
TL;DR: A detailed analysis pipeline is provided illustrating how the deep learning network StarDist can be combined with the popular tracking software TrackMate to perform 2D automated cell tracking and provide fully quantitative readouts.
Journal ArticleDOI
Sphingolipids inhibit vimentin-dependent cell migration.
Claire L. Hyder,Kati Kemppainen,Kimmo O. Isoniemi,Susumu Y. Imanishi,Susumu Y. Imanishi,Hidemasa Goto,Masaki Inagaki,Elnaz Fazeli,John E. Eriksson,Kid Törnquist,Kid Törnquist +10 more
TL;DR: It is demonstrated, by using wild-type and vimentin-knockout mouse embryonic fibroblasts, that the sphingolipid-mediated inhibition of migration is dependent on vimentsin, implying that this newly discovered sphingoipid–vimentin signalling axis exerts brake-and-throttle functions in the regulation of cell migration.
Journal ArticleDOI
QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy
Glyn Nelson,Ulrike Boehm,Steve Bagley,Peter Bajcsy,Johanna Bischof,Claire M. Brown,Aurelien Dauphin,Ian M. Dobbie,John E Eriksson,Orestis Faklaris,Julia Fernandez-Rodriguez,Alexia Ferrand,Laurent Gelman,Ali Gheisari,Hella Hartmann,Christian Kukat,Alex Laude,Miso Mitkovski,Sebastian Munck,Alison J. North,Tobias M. Rasse,Ute Resch-Genger,Lucas C Schuetz,Arne Seitz,Caterina Strambio-De-Castillia,Jason R. Swedlow,Ioannis Alexopoulos,Karin Aumayr,Sergiy V. Avilov,Gert-Jan Bakker,Rodrigo R Bammann,Andrea Bassi,Hannes Beckert,Sebastian Beer,Yury Belyaev,Jakob Bierwagen,Konstantin A Birngruber,Manel Bosch,Juergen Breitlow,Lisa A. Cameron,Joe Chalfoun,James J. Chambers,Chieh-Li Chen,Eduardo Conde-Sousa,Alexander D. Corbett,Fabrice P. Cordelières,Elaine Del Nery,Ralf Dietzel,Frank Eismann,Elnaz Fazeli,Andreas Felscher,Hans-Ulrich Fried,Nathalie Gaudreault,Wah Ing Goh,Thomas Guilbert,Roland Hadleigh,Peter Hemmerich,Gerhard A Holst,Michelle S. Itano,Claudia B Jaffe,Helena Jambor,Stuart C Jarvis,Antje Keppler,David Kirchenbuechler,Marcel Kirchner,Norio Kobayashi,Gabriel Krens,Susanne Kunis,Judith Lacoste,Marco Marcello,Gabriel G. Martins,Daniel J Metcalf,Claire A. Mitchell,Joshua Moore,Tobias Mueller,Michael S. Nelson,Stephen Ogg,Shuichi Onami,Alexandra L Palmer,Perrine Paul-Gilloteaux,Jaime A. Pimentel,Laure Plantard,Santosh Podder,Elton Rexhepaj,Arnaud Royon,Markku Saari,Damien Schapman,Vincent Schoonderwoert,Britta Schroth-Diez,Stanley Schwartz,Michael Shaw,Martin Spitaler,Martin T Stoeckl,Damir Sudar,Jeremie Teillon,Stefan Terjung,Roland Thuenauer,Christian D Wilms,Graham D. Wright,Roland Nitschke +99 more
TL;DR: The QUAREP-LiMi initiative as mentioned in this paper aims to improve the overall quality and reproducibility of light microscope image data by introducing broadly accepted standard practices and accurately captured image data metrics.