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How growth and proliferation are precisely controlled in organs during development and how the regulation of cell division contributes to the formation of complex cell type patterns are important questions in developmental biology. Such a pattern of diverse cell sizes is characteristic of the sepals, the outermost floral organs, of the plant Arabidopsis(More)
Alzheimer's disease is a major cause of dementia for which treatments remain unsatisfactory. Cyclin-dependent kinase 5 (CDK5) is a relevant kinase that has been hypothesized to contribute to the tau pathology. Several classes of chemical inhibitors for CDK5 have been developed, but they generally lack the specificity to distinguish among various(More)
MOTIVATION Advances in the field of microscopy have brought about the need for better image management and analysis solutions. Novel imaging techniques have created vast stores of images and metadata that are difficult to organize, search, process and analyze. These tasks are further complicated by conflicting and proprietary image and metadata formats,(More)
Many biomedical applications require the enhancement of coherent flow-like curvilinear structures in images. This can be accomplished in a natural way by adopting anisotropic diffusion filtering to local texture analysis by means of the structure tensor. Here we propose a contrast independent anisotropic diffusion filtering of curvilinear structures based(More)
MOTIVATION Fungi form extensive interconnected mycelial networks that scavenge efficiently for scarce resources in a heterogeneous environment. The architecture of the network is highly responsive to local nutritional cues, damage or predation, and continuously adapts through growth, branching, fusion or regression. These networks also provide an example of(More)
BACKGROUND We present a biosegmentation benchmark that includes infrastructure, datasets with associated ground truth, and validation methods for biological image analysis. The primary motivation for creating this resource comes from the fact that it is very difficult, if not impossible, for an end-user to choose from a wide range of segmentation methods(More)
This paper describes ongoing work on creating a benchmarking and validation dataset for biological image segmentation. While the primary target is biological images, we believe that the dataset would be of help to researchers working in image segmentation and tracking in general. The motivation for creating this resource comes from the observation that(More)
Many biomedical applications require detection of curvilinear structures in images and would benefit from automatic or semiautomatic segmentation to allow high-throughput measurements. Here, we propose a contrast-independent approach to identify curvilinear structures based on oriented phase congruency, i.e., the phase congruency tensor (PCT). We show that(More)
Identification of cell nuclei is a fundamental operation,and nuclei centroids are used in a wide gamut of biological and medical analysis. Many methods exist for semi-automated and automated counting but usually require extensive parameter tuning to make tthem work for specific applications. While one can still do manual counting in 2-D, this is a(More)