Quantitative measurements in 3-dimensional datasets of mouse lymph nodes resolve organ-wide functional dependencies
Summary: Deep tissue imaging has become state of the art in biology, but now the problem is to quantify spatial information in a global, organ-wide context. Although access to the raw data is no longer a limitation, the computational tools to extract biologically useful information out of these large data sets is still catching up. In many cases, to understand the mechanism behind a biological process, where molecules or cells interact with each other, it is mandatory to know their mutual positions. We illustrate this principle here with the immune system. Although the general functions of lymph nodes as immune sentinels are well described, many cellular and molecular details governing the interactions of lymphocytes and dendritic cells remain unclear to date and prevent an in-depth mechanistic understanding of the immune system. We imaged ex vivo lymph nodes isolated from both wild-type and transgenic mice lacking key factors for dendritic cell positioning and used software written in MATLAB to determine the spatial distances between the dendritic cells and the internal high endothelial vascular network. This allowed us to quantify the spatial localization of the dendritic cells in the lymph node, which is a critical parameter determining the effectiveness of an adaptive immune response.
- Systems biology approaches for understanding cellular mechanisms of immunity in lymph nodes during infection
- Using high resolution X-ray computed tomography to create an image based model of a lymph node
- Bayesian spatio-dynamic modeling in cell motility studies: learning nonlinear taxic fields guiding the immune response
- Modeling and analysis of the meta-population dynamics of lymphocyte repertoires
- MEASUREMENT OF THE SHORTEST PATH LENGTH; DISTANCE ESTIMATION WITHIN THE 3D BORDERS OF A TISSUE OF INTEREST
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