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Development of 3D X-ray phase-contrast Imaging and Analysis Tools for Tubular and Branching Structures with Applications in Colorectal Cancer Research

Development of 3D X-ray phase-contrast Imaging and Analysis Tools for Tubular and Branching Structures with Applications in Colorectal Cancer Research
Development of 3D X-ray phase-contrast Imaging and Analysis Tools for Tubular and Branching Structures with Applications in Colorectal Cancer Research
Data and analysis software scripts supporting the PhD University of Southampton Doctoral thesis titled 'Development of 3D X-ray phase-contrast Imaging and Analysis Tools for Tubular and Branching Structures with Applications in Colorectal Cancer Research' (DOI: 10.5258/SOTON/T0026). The dataset is organised following the chapter structure of the thesis: Chapter 2: Data collected during an animal study (Azoxymethane and Dextran Sodium Sulphate mouse model for colorectal cancer). Chapter 3:Plots of the refractive index of paraffin wax and soft tissue. X-ray phase-contrast micro-computed tomographic (μCT) experiment to measure to optimise spatial resolution. Chapter 4:The "3D cyclorama" software that unrolls/flattens deformed tubes of non-uniform thickness. Chapter 6:Data supporting the 3D morphological quantification of crypt budding in early-stage colorectal cancer in the mouse model of chapter 2. Appendix A1:Data produced for the validation of the "3D cyclorama" software. Appendix B:Data and scripts to compute the thickness of individual tissue layers in the murine colon, as well as the number of budding and non-budding crypts found in each μCT scan.
μCT, digital unrolling, digital flattening, crypt budding, 3D morphology, phase-contrast imaging, quantitative morphometry, colorectal cancer, mouse model
University of Southampton
Rossides, Charalambos
0a9d478d-4417-4841-83f5-d059172b3f9d
Pender, Sylvia
62528b03-ec42-41bb-80fe-48454c2c5242
Schneider, Philipp
a810f925-4808-44e4-8a4a-a51586f9d7ad
Rossides, Charalambos
0a9d478d-4417-4841-83f5-d059172b3f9d
Pender, Sylvia
62528b03-ec42-41bb-80fe-48454c2c5242
Schneider, Philipp
a810f925-4808-44e4-8a4a-a51586f9d7ad

Rossides, Charalambos (2021) Development of 3D X-ray phase-contrast Imaging and Analysis Tools for Tubular and Branching Structures with Applications in Colorectal Cancer Research. University of Southampton doi:10.5258/SOTON/D1565 [Dataset]

Record type: Dataset

Abstract

Data and analysis software scripts supporting the PhD University of Southampton Doctoral thesis titled 'Development of 3D X-ray phase-contrast Imaging and Analysis Tools for Tubular and Branching Structures with Applications in Colorectal Cancer Research' (DOI: 10.5258/SOTON/T0026). The dataset is organised following the chapter structure of the thesis: Chapter 2: Data collected during an animal study (Azoxymethane and Dextran Sodium Sulphate mouse model for colorectal cancer). Chapter 3:Plots of the refractive index of paraffin wax and soft tissue. X-ray phase-contrast micro-computed tomographic (μCT) experiment to measure to optimise spatial resolution. Chapter 4:The "3D cyclorama" software that unrolls/flattens deformed tubes of non-uniform thickness. Chapter 6:Data supporting the 3D morphological quantification of crypt budding in early-stage colorectal cancer in the mouse model of chapter 2. Appendix A1:Data produced for the validation of the "3D cyclorama" software. Appendix B:Data and scripts to compute the thickness of individual tissue layers in the murine colon, as well as the number of budding and non-budding crypts found in each μCT scan.

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Chapter_2.zip - Dataset
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Chapter_3.zip - Image
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Chapter_4.zip - Software
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Chapter_6.zip - Dataset
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Appendix_A1.zip - Image
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Appendix_B.zip - Dataset
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readme_supporting_data_and_analysis_Rossides_thesis.txt - Text
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Published date: 31 May 2021
Related URLs:
Keywords: μCT, digital unrolling, digital flattening, crypt budding, 3D morphology, phase-contrast imaging, quantitative morphometry, colorectal cancer, mouse model
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Identifiers

Local EPrints ID: 449536
URI: http://eprints.soton.ac.uk/id/eprint/449536
DOI: doi:10.5258/SOTON/D1565
PURE UUID: 10c61e15-1256-4438-af4a-e0eb9ba7951c
ORCID for Sylvia Pender: ORCID iD orcid.org/0000-0001-6332-0333
ORCID for Philipp Schneider: ORCID iD orcid.org/0000-0001-7499-3576

Catalogue record

Date deposited: 07 Jun 2021 16:30
Last modified: 06 May 2023 01:49

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Contributors

Creator: Charalambos Rossides
Research team head: Sylvia Pender ORCID iD
Research team head: Philipp Schneider ORCID iD

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