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Tracking algorithms are traditionally based on either a variational approach or a Bayesian one. In the variational case, a cost function is established between two consecutive frames and minimized by standard optimization algorithms. In the Bayesian case, a stochastic motion model is used to maintain temporal consistency. Among the Bayesian methods we focus on the particle filter, which is especially...
While high-content screening is already playing an important role in drug discovery, a growing number of academic laboratories are applying these techniques to conduct a system-level analysis of biological processes. In this context more complex assays and model systems are being imaged at higher throughput. Examples include co-culture assays, tissues, and entire model systems, as for example zebrafish...
Fluorescence microscopy is a powerful tool for the rapid identification of target organisms. However, natural autofluorescence often interferes with identification. Time-gated luminescence microscopy (TGLM) uses luminescent labels with long persistence in conjunction with digital imaging to regain discriminative power. Following the excitation pulse, short-lived autofluorescence decays rapidly whereas...
We present a method to separate clustered nuclei from fluorescence microscopy cellular images, using shape markers and marking function in a watershed-like algorithm. Shape markers are extracted using an adaptive H-minima transform. A marking function based on the outer distance transform is introduced to accurately separate clustered nuclei. With synthetic images, we quantitatively demonstrate the...
Successful biological image analysis usually requires satisfactory segmentations to identify regions of interest as an intermediate step. Here we present a novel graphical model approach for segmentation of multi-cell yeast images acquired by fluorescence microscopy. Yeast cells are often clustered together, so they are hard to segment by conventional techniques. Our approach assumes that two parallel...
The question I would like to help answer is: What is the role and what can imaging do for systems biology? In recent years, the focus in biological sciences has shifted from understanding single parts of larger systems, sort of vertical approach, to understanding complex systems at the cellular and molecular levels, horizontal approach. Thus the revolution of "omics" projects, genomics and...
Spatio-temporal dynamics within cells can now be recorded on film at appropriate resolutions thanks to advances made in fluorescence microscopy technologies. Even the single-particle tracking technique is now being applied to observations of biological molecules. Conversely, little is known about how reaction diffusion at the molecular level affects properties at the cellular level. Therefore, we...
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