Cell Spatial Analysis in Crohn's Disease: Unveiling Local Cell Arrangement Pattern with Graph-based Signatures.

Autor:	Bao S; Department of Electrical and Computer Engineering, Vanderbilt University, Nashville, TN, USA., Zhu S; Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA., Kolachala VL; Division of Pediatric Gastroenterology, Department of Pediatrics and Pediatric Research Institute, Children's Healthcare of Atlanta, Emory University School of Medicine, Atlanta, GA, USA., Remedios LW; Department of Computer Science, Vanderbilt University, Nashville, TN, USA., Hwang Y; Division of Pediatric Gastroenterology, Department of Pediatrics and Pediatric Research Institute, Children's Healthcare of Atlanta, Emory University School of Medicine, Atlanta, GA, USA., Sun Y; School of Electrical and Computer Engineering, Georgia Institute of Technology, Atlanta, GA, USA., Deng R; Department of Computer Science, Vanderbilt University, Nashville, TN, USA., Cui C; Department of Computer Science, Vanderbilt University, Nashville, TN, USA., Zhang R; Department of Computer Science, Vanderbilt University, Nashville, TN, USA., Li Y; Department of Otolaryngology-Head and Neck Surgery, Vanderbilt University Medical Center, Nashville, TN, USA., Li J; Department of Biostatistics, Vanderbilt University Medical Center, Nashville, TN, USA., Roland JT; Department of Surgery, Vanderbilt University, Medical Center, Nashville, TN, USA., Liu Q; Department of Biostatistics, Vanderbilt University Medical Center, Nashville, TN, USA., Lau KS; Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN, USA., Kugathasan S; Division of Pediatric Gastroenterology, Department of Pediatrics and Pediatric Research Institute, Children's Healthcare of Atlanta, Emory University School of Medicine, Atlanta, GA, USA., Qiu P; Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA., Wilson KT; Division of Gastroenterology, Hepatology, and Nutrition, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA.; Veterans Affairs Tennessee Valley Healthcare System, Nashville, TN, USA., Coburn LA; Division of Gastroenterology, Hepatology, and Nutrition, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA.; Veterans Affairs Tennessee Valley Healthcare System, Nashville, TN, USA., Landman BA; Department of Electrical and Computer Engineering, Vanderbilt University, Nashville, TN, USA.; Department of Computer Science, Vanderbilt University, Nashville, TN, USA., Huo Y; Department of Electrical and Computer Engineering, Vanderbilt University, Nashville, TN, USA.; Department of Computer Science, Vanderbilt University, Nashville, TN, USA.
Jazyk:	angličtina
Zdroj:	Proceedings of SPIE--the International Society for Optical Engineering [Proc SPIE Int Soc Opt Eng] 2024 Feb; Vol. 12933. Date of Electronic Publication: 2024 Apr 03.
DOI:	10.1117/12.3006675
Abstrakt:	Crohn's disease (CD) is a chronic and relapsing inflammatory condition that affects segments of the gastrointestinal tract. CD activity is determined by histological findings, particularly the density of neutrophils observed on Hematoxylin and Eosin stains (H&E) imaging. However, understanding the broader morphometry and local cell arrangement beyond cell counting and tissue morphology remains challenging. To address this, we characterize six distinct cell types from H&E images and develop a novel approach for the local spatial signature of each cell. Specifically, we create a 10-cell neighborhood matrix, representing neighboring cell arrangements for each individual cell. Utilizing t-SNE for non-linear spatial projection in scatter-plot and Kernel Density Estimation contour-plot formats, our study examines patterns of differences in the cellular environment associated with the odds ratio of spatial patterns between active CD and control groups. This analysis is based on data collected at the two research institutes. The findings reveal heterogeneous nearest-neighbor patterns, signifying distinct tendencies of cell clustering, with a particular focus on the rectum region. These variations underscore the impact of data heterogeneity on cell spatial arrangements in CD patients. Moreover, the spatial distribution disparities between the two research sites highlight the significance of collaborative efforts among healthcare organizations. All research analysis pipeline tools are available at https://github.com/MASILab/cellNN.
Databáze:	MEDLINE
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