Graph-based description of tertiary lymphoid organs at single-cell level.
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Authors
Schaadt, Nadine SSchönmeyer, Ralf
Forestier, Germain
Brieu, Nicolas
Braubach, Peter
Nekolla, Katharina
Meyer-Hermann, Michael
Feuerhake, Friedrich
Issue Date
2020-02-01
Metadata
Show full item recordAbstract
Our aim is to complement observer-dependent approaches of immune cell evaluation in microscopy images with reproducible measures for spatial composition of lymphocytic infiltrates. Analyzing such patterns of inflammation is becoming increasingly important for therapeutic decisions, for example in transplantation medicine or cancer immunology. We developed a graph-based assessment of lymphocyte clustering in full whole slide images. Based on cell coordinates detected in the full image, a Delaunay triangulation and distance criteria are used to build neighborhood graphs. The composition of nodes and edges are used for classification, e.g. using a support vector machine. We describe the variability of these infiltrates on CD3/CD20 duplex staining in renal biopsies of long-term functioning allografts, in breast cancer cases, and in lung tissue of cystic fibrosis patients. The assessment includes automated cell detection, identification of regions of interest, and classification of lymphocytic clusters according to their degree of organization. We propose a neighborhood feature which considers the occurrence of edges with a certain type in the graph to distinguish between phenotypically different immune infiltrates. Our work addresses a medical need and provides a scalable framework that can be easily adjusted to the requirements of different research questions.Citation
PLoS Comput Biol. 2020 Feb 21;16(2):e1007385. doi: 10.1371/journal.pcbi.1007385. eCollection 2020 Feb.Affiliation
BRICS, Braunschweiger Zentrum für Systembiologie, Rebenring 56,38106 Braunschweig, Germany.Publisher
PLOSJournal
PLOS computational biologyPubMed ID
32084130Type
ArticleLanguage
enISSN
1553-7358ae974a485f413a2113503eed53cd6c53
10.1371/journal.pcbi.1007385
Scopus Count
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