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BMC Bioinformatics. 2015 Nov 25;16:396. doi: 10.1186/s12859-015-0804-9.

Fully automated registration of vibrational microspectroscopic images in histologically stained tissue sections.

Author information

1
Department of Biophysics, CAS-MPG Partner Institute and Key Laboratory for Computational Biology, 320 Yueyang Road, Shanghai, 200031, China. yangchen@picb.ac.cn.
2
Department of Biophysics, Ruhr-University Bochum, Universitätsstraße 150, Bochum, 44780, Germany. daniel.niedieker@bph.rub.de.
3
Department of Biophysics, Ruhr-University Bochum, Universitätsstraße 150, Bochum, 44780, Germany. fred@bph.rub.de.
4
Department of Biophysics, Ruhr-University Bochum, Universitätsstraße 150, Bochum, 44780, Germany. melanie.horn@bph.rub.de.
5
Institute of Pathology, Ruhr-University Bochum, Bochum, Germany, Bürkle-de-la-Camp-Platz 1, Bochum, 44789, Germany. andrea.tannapfel@rub.de.
6
Department of Biophysics, Ruhr-University Bochum, Universitätsstraße 150, Bochum, 44780, Germany. angela@bph.rub.de.
7
Department of Biophysics, CAS-MPG Partner Institute and Key Laboratory for Computational Biology, 320 Yueyang Road, Shanghai, 200031, China. gerwert@bph.rub.de.
8
Department of Biophysics, Ruhr-University Bochum, Universitätsstraße 150, Bochum, 44780, Germany. gerwert@bph.rub.de.
9
Department of Biophysics, Ruhr-University Bochum, Universitätsstraße 150, Bochum, 44780, Germany. axel.mosig@bph.rub.de.

Abstract

BACKGROUND:

In recent years, hyperspectral microscopy techniques such as infrared or Raman microscopy have been applied successfully for diagnostic purposes. In many of the corresponding studies, it is common practice to measure one and the same sample under different types of microscopes. Any joint analysis of the two image modalities requires to overlay the images, so that identical positions in the sample are located at the same coordinate in both images. This step, commonly referred to as image registration, has typically been performed manually in the lack of established automated computational registration tools.

RESULTS:

We propose a corresponding registration algorithm that addresses this registration problem, and demonstrate the robustness of our approach in different constellations of microscopes. First, we deal with subregion registration of Fourier Transform Infrared (FTIR) microscopic images in whole-slide histopathological staining images. Second, we register FTIR imaged cores of tissue microarrays in their histopathologically stained counterparts, and finally perform registration of Coherent anti-Stokes Raman spectroscopic (CARS) images within histopathological staining images.

CONCLUSIONS:

Our validation involves a large variety of samples obtained from colon, bladder, and lung tissue on three different types of microscopes, and demonstrates that our proposed method works fully automated and highly robust in different constellations of microscopes involving diverse types of tissue samples.

PMID:
26607812
PMCID:
PMC4659215
DOI:
10.1186/s12859-015-0804-9
[Indexed for MEDLINE]
Free PMC Article

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