Mapping the Localization of Proteins Within Filopodia Using FiloMap

Guillaume Jacquemet

doi:10.1007/978-1-0716-2887-4_4

Mapping the Localization of Proteins Within Filopodia Using FiloMap

Guillaume Jacquemet

Biokemi och cellbiologi

Forskningsoutput: Kapitel i bok/konferenshandling › Kapitel › Vetenskaplig › Peer review

3 Citeringar (Scopus)

12 Nedladdningar (Pure)

Sammanfattning

Filopodia are fingerlike membrane protrusions extended by cells to sense their environment. Filopodia are widely used by migrating cells in vivo and directly contribute to several physiological processes and diseases. Due to the essential roles of filopodia in sensing the extracellular environment, there is a need to characterize their composition and ultrastructure further. This chapter highlights FiloMap, an image analysis pipeline that utilizes Fiji and R to map the localization of proteins within filopodia from microscopy images. I provide step-by-step protocols on (a) setting up FiloMap in Fiji and R, (b) extracting line intensity profiles from filopodia stainings in Fiji, (c) further analyzing line intensity profiles in R, and (d) creating filopodia maps to compare the localization of multiple proteins within filopodia. Notably, while FiloMap was written to analyze filopodia, the analysis pipeline described here can also analyze and compile any line intensity profiles.

Originalspråk	Engelska
Titel på värdpublikation	Methods in Molecular Biology
Redaktörer	Coert Margadant
Förlag	Humana press
Sidor	51-61
Antal sidor	11
Volym	2608
ISBN (elektroniskt)	978-1-0716-2887-4
ISBN (tryckt)	978-1-0716-2886-7
DOI	https://doi.org/10.1007/978-1-0716-2887-4_4
Status	Publicerad - 19 jan. 2023
MoE-publikationstyp	A3 Del av bok eller annan forskningsbok

Publikationsserier

Namn	Methods in Molecular Biology
Volym	2608
ISSN (tryckt)	1064-3745
ISSN (elektroniskt)	1940-6029

Finansiering

I thank Sujan Ghimire, Ana Popović, and Joanna Pylv€an€ainen for helping test FiloMap. The Cell Imaging and Cytometry core facility (Turku Bioscience, University of Turku, Åbo Akademi University, and Biocenter Finland) and Turku BioImaging are acknowledged for their services, instrumentation, and expertise. This work was supported by the Academy of Finland (338537), the Sigrid Jusélius Foundation, the Finnish Heart Foundation, and the Finnish Cancer Foundation. This research was also supported by InFLAMES Flagship Programme of the Academy of Finland (decision numbers: 337531).

Åtkomst av dokument

10.1007/978-1-0716-2887-4_4

Mapping the localization of proteins within filopodia using FiloMap

https://urn.fi/URN:NBN:fi-fe202502018603

Citera det här

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abstract = "Filopodia are fingerlike membrane protrusions extended by cells to sense their environment. Filopodia are widely used by migrating cells in vivo and directly contribute to several physiological processes and diseases. Due to the essential roles of filopodia in sensing the extracellular environment, there is a need to characterize their composition and ultrastructure further. This chapter highlights FiloMap, an image analysis pipeline that utilizes Fiji and R to map the localization of proteins within filopodia from microscopy images. I provide step-by-step protocols on (a) setting up FiloMap in Fiji and R, (b) extracting line intensity profiles from filopodia stainings in Fiji, (c) further analyzing line intensity profiles in R, and (d) creating filopodia maps to compare the localization of multiple proteins within filopodia. Notably, while FiloMap was written to analyze filopodia, the analysis pipeline described here can also analyze and compile any line intensity profiles.",

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Mapping the Localization of Proteins Within Filopodia Using FiloMap

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