CytoMAP: A Spatial Analysis Toolbox Reveals Features of Myeloid Cell Organization in Lymphoid Tissues.

Animals Lymphoid Tissue / metabolism Mice Myeloid Cells / metabolism Spatial Analysis
cellular organization dendritic cell positioning lymphoid tissue anatomy machine learning quantitative image analysis quantitative microscopy spatial analysis tissue microanatomy tissue organization tumor microenvironments

Journal

Cell reports
ISSN: 2211-1247
Titre abrégé: Cell Rep
Pays: United States
ID NLM: 101573691

Informations de publication

Date de publication:
21 04 2020
Historique:
received: 07 11 2019
revised: 10 02 2020
accepted: 26 03 2020
entrez: 23 4 2020
pubmed: 23 4 2020
medline: 15 5 2021
Statut: ppublish

Résumé

Recently developed approaches for highly multiplexed imaging have revealed complex patterns of cellular positioning and cell-cell interactions with important roles in both cellular- and tissue-level physiology. However, tools to quantitatively study cellular patterning and tissue architecture are currently lacking. Here, we develop a spatial analysis toolbox, the histo-cytometric multidimensional analysis pipeline (CytoMAP), which incorporates data clustering, positional correlation, dimensionality reduction, and 2D/3D region reconstruction to identify localized cellular networks and reveal features of tissue organization. We apply CytoMAP to study the microanatomy of innate immune subsets in murine lymph nodes (LNs) and reveal mutually exclusive segregation of migratory dendritic cells (DCs), regionalized compartmentalization of SIRPα

Identifiants

DOI: 10.1016/j.celrep.2020.107523 PMID: 32320656 PMC: PMC7233132
pubmed: 32320656
pii: S2211-1247(20)30423-X
doi: 10.1016/j.celrep.2020.107523
pmc: PMC7233132
mid: NIHMS1586767
pii:
doi:

Types de publication

Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Langues

eng

Sous-ensembles de citation

IM

Pagination

107523

Subventions

Organisme : NIAID NIH HHS
ID : T32 AI106677
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI134246
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM007270
Pays : United States
Organisme : NICHD NIH HHS
ID : T32 HD007233
Pays : United States
Organisme : NIAID NIH HHS
ID : U19 AI135976
Pays : United States
Organisme : NIAID NIH HHS
ID : R21 AI142667
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI134713
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI076327
Pays : United States

Informations de copyright

Copyright © 2020 The Author(s). Published by Elsevier Inc. All rights reserved.

Déclaration de conflit d'intérêts

Declaration of Interests M.P. and T.P. are employees of Roche. All other authors declare no competing interests.

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Auteurs

Caleb R Stoltzfus (CR)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Jakub Filipek (J)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Benjamin H Gern (BH)

Seattle Children's Research Institute, Seattle, WA 98109, USA; Department of Pediatrics, University of Washington, Seattle, WA 98195, USA.

Brandy E Olin (BE)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Joseph M Leal (JM)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Yajun Wu (Y)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Miranda R Lyons-Cohen (MR)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Jessica Y Huang (JY)

Department of Immunology, University of Washington, Seattle, WA 98109, USA.

Clarissa L Paz-Stoltzfus (CL)

School of Medicine, University of Washington, Seattle, WA 98195, USA.

Courtney R Plumlee (CR)

Seattle Children's Research Institute, Seattle, WA 98109, USA.

Thomas Pöschinger (T)

Roche Innovation Center Munich, Pharmaceutical Research & Early Development (pRED), Discovery Pharmacology, Nonnenwald 2, 82377 Penzberg, Germany.

Kevin B Urdahl (KB)

Department of Immunology, University of Washington, Seattle, WA 98109, USA; Seattle Children's Research Institute, Seattle, WA 98109, USA; Department of Pediatrics, University of Washington, Seattle, WA 98195, USA.

Mario Perro (M)

Roche Innovation Center Zurich, Pharmaceutical Research & Early Development (pRED), Wagistrasse 10, 8952 Schlieren, Switzerland.

Michael Y Gerner (MY)

Department of Immunology, University of Washington, Seattle, WA 98109, USA. Electronic address: gernermy@uw.edu.

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Classifications MeSH

questionsmedicales.fr › Eucaryotes › Animaux › CytoMAP: A Spatial Analysis Toolbox Reveals...
questionsmedicales.fr › Systèmes sanguin et immunitaire › Système immunitaire › Système lymphatique › Tissu lymphoïde › CytoMAP: A Spatial Analysis Toolbox Reveals...
questionsmedicales.fr › Eucaryotes › Animaux › Chordés › Vertébrés › Mammifères › Eutheria › Rodentia › Muridae › Murinae › Souris › CytoMAP: A Spatial Analysis Toolbox Reveals...
questionsmedicales.fr › Cellules › Cellules myéloïdes › CytoMAP: A Spatial Analysis Toolbox Reveals...
questionsmedicales.fr › Environnement et santé publique › Santé publique › Méthodes épidémiologiques › Statistiques comme sujet › Analyse spatiale › CytoMAP: A Spatial Analysis Toolbox Reveals...