Data Science for Health Image Alignment: A User-Friendly Open-Source ImageJ/Fiji Plugin for Aligning Multimodality/Immunohistochemistry/Immunofluorescence 2D Microscopy Images

Author:

Piccinini Filippo12ORCID,Tazzari Marcella1ORCID,Tumedei Maria Maddalena1,Stellato Mariachiara3ORCID,Remondini Daniel3ORCID,Giampieri Enrico2ORCID,Martinelli Giovanni1ORCID,Castellani Gastone2ORCID,Carbonaro Antonella4ORCID

Affiliation:

1. IRCCS Istituto Romagnolo per lo Studio dei Tumori (IRST) “Dino Amadori”, 47014 Meldola, FC, Italy

2. Department of Medical and Surgical Sciences (DIMEC), University of Bologna, 40126 Bologna, BO, Italy

3. Department of Physics and Astronomy “Augusto Righi” (DIFA), University of Bologna, 40127 Bologna, BO, Italy

4. Department of Computer Science and Engineering (DISI), University of Bologna, 47521 Cesena, FC, Italy

Abstract

Most of the time, the deep analysis of a biological sample requires the acquisition of images at different time points, using different modalities and/or different stainings. This information gives morphological, functional, and physiological insights, but the acquired images must be aligned to be able to proceed with the co-localisation analysis. Practically speaking, according to Aristotle’s principle, “The whole is greater than the sum of its parts”, multi-modal image registration is a challenging task that involves fusing complementary signals. In the past few years, several methods for image registration have been described in the literature, but unfortunately, there is not one method that works for all applications. In addition, there is currently no user-friendly solution for aligning images that does not require any computer skills. In this work, DS4H Image Alignment (DS4H-IA), an open-source ImageJ/Fiji plugin for aligning multimodality, immunohistochemistry (IHC), and/or immunofluorescence (IF) 2D microscopy images, designed with the goal of being extremely easy to use, is described. All of the available solutions for aligning 2D microscopy images have also been revised. The DS4H-IA source code; standalone applications for MAC, Linux, and Windows; video tutorials; manual documentation; and sample datasets are publicly available.

Publisher

MDPI AG

Subject

Electrical and Electronic Engineering,Biochemistry,Instrumentation,Atomic and Molecular Physics, and Optics,Analytical Chemistry

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