Semi-automatic determination of cell surface areas used in systems biology.

  title={Semi-automatic determination of cell surface areas used in systems biology.},
  author={Volker Morath and Margret Keuper and Marta Rodriguez-Franco and Sumit Deswal and Gina J. Fiala and Britta Blumenthal and Daniel Kaschek and Jens Timmer and Gunther Neuhaus and Stephan Ehl and Olaf Ronneberger and Wolfgang W. Schamel},
  journal={Frontiers in bioscience},
Quantitative biology requires high precision measurement of cellular parameters such as surface areas or volumes. Here, we have developed an integrated approach in which the data from 3D confocal microscopy and 2D high-resolution transmission electron microscopy were combined. The volumes and diameters of the cells within one population were automatically measured from the confocal data sets. The perimeter of the cell slices was measured in the TEM images using a semi-automated segmentation… Expand
Segmentation of Cells and Sub-cellular Structures from Microscopic Recordings
Methods for the generation of data terms that allow for the segmentation of fluorescently labeled cell nuclei and nucleoli from widefield microscopic recordings and a method that allows to learn topological knowledge that can be used for the simultaneous classification and segmentsation of objects are presented. Expand
Pre-Clustering of the B Cell Antigen Receptor Demonstrated by Mathematically Extended Electron Microscopy
The approach complements high resolution fluorescence imaging and clearly demonstrates the existence of pre-formed BCR clusters on resting B cells, questioning the classical cross-linking model of BCR activation. Expand
Advanced fluorescence microscopy reveals disruption of dynamic CXCR4 dimerization by subpocket-specific inverse agonists
It is shown that the CXC chemokine receptor CXCR4, a GPCR that regulates immune and hematopoietic cell trafficking, and a major drug target in cancer therapy, has an oligomerization behavior modulated by its active conformation, and inverse agonists that bind to the receptor minor pocket inhibit CX CR4 constitutive activity and abolish receptor dimerization. Expand
Segmentation in Point Clouds from RGB-D Using Spectral Graph Reduction
This chapter combines a state-of-the-art method for natural RGB image segmentation based on spectral graph analysis with an RGB-D boundary detector and shows that spectral graph reduction can be employed in this case, facilitating the computation ofRGB-D segmentations in large datasets. Expand
Periodontal Disease Impairs Muscle Recovery by Modulating the Recruitment of Leukocytes
Serum levels of inflammatory markers were modified by periodontal disease and, when combined with exercise, may negatively modulate inflammation and the association between PD and physical exercise showed the most significant changes in the number of inflammatory cells. Expand
Beyond KernelBoost
This Technical Report introduces two important mechanisms to empower the KernelBoost classifier, namely pooling and the clustering of positive samples based on the appearance of the corresponding groundtruth to increase the effectiveness of the system on biomedical images, where texture plays a major role in the recognition of the different image components. Expand
Iterative deep convolutional encoder-decoder network for medical image segmentation
  • Jung Uk Kim, Hak Gu Kim, Yong Man Ro
  • Computer Science
  • 2017 39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)
  • 2017
Experimental results show that the proposed iterative deep learning framework is able to yield excellent medical image segmentation performances for various medical images. Expand


Volume and surface area measurement of viable chondrocytes in situ using geometric modelling of serial confocal sections
  • F. Guilak
  • Materials Science, Medicine
  • Journal of microscopy
  • 1994
Calibration results indicated that the theoretical modelling algorithm is relatively precise when applied to simulated convex (ellipsoidal) cells, with overall errors of less than 0·5% in surface area and volume measurements. Expand
Cell volume measurement using scanning ion conductance microscopy.
We report a novel scanning ion conductance microscopy (SICM) technique for assessing the volume of living cells, which allows quantitative, high-resolution characterization of dynamic changes in cellExpand
Quantification of structures and gold labeling in transmission electron microscopy.
  • J. Lucocq
  • Biology, Medicine
  • Methods in cell biology
  • 2008
A range of quantitative tools that can be applied to ultrathin sections of biological material, including transmission electron microscopy quantitative estimations, are described to evaluate labeling distributions and labeling intensities by statistical means. Expand
Stereological model system for free cells and base-line data for human peripheral blood-derived small t-lymphocytes
SummaryT-lymphocytes derived from human peripheral blood and passed through a nylon-wool column, were employed to develop and test a new Stereological model system for free spherical cells, allowingExpand
Confocal stereology and image analysis: methods for estimating geometrical characteristics of cells and tissues from three-dimensional confocal images.
A short review of confocal stereology and three-dimensional image analysis is presented, pointing out the achievements accomplished in this field by the Department of Biomathematics (Institute ofExpand
A method for measurement and simultaneous analysis of DNA, protein, and cell volume in the same cell by use of a newly developed multiparameter cell analysis system which incorporates several pre-existing analytical techniques and allows all the various measurements to be performed on the samecell under conditions where large populations can be analyzed rapidly and a high degree of statistical precision obtained. Expand
Electron microscopy applications for quantitative cellular microbiology
It is explained how EM, applied in an integrated approach with LM, has distinct advantages and can provide unique insights into the cellular fate of microorganisms. Expand
Measurement of volume injected into individual cells by quantitative fluorescence microscopy.
  • G. M. Lee
  • Biology, Medicine
  • Journal of cell science
  • 1989
A simple and reliable procedure for determining the volume injected was developed in order to determine what intracellular concentration of AMP-PNP was necessary to inhibit specific cellular processes. Expand
Ultrastructural morphometry of human leucocytes in health and disease.
The use of computers and sophisticated statistical packages has greatly facilitated the application of multiple comparison procedures and has permitted discriminant analysis to be carried out where appropriate, showing that ultrastructural morphometry of leucocytes will have an increasing application in clinical pathology. Expand
Stereological study of tissue compartments of the human spleen.
The volume densities of tissue compartments, as well as stereological parameters of lymphoid follicles, were similar in both groups of splenic samples, except for the volume densITIES of perifollicular zone and periarteriolar lymphatic sheath, where a statistically significant difference was registered. Expand