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Network structures formed by actin filaments are present in many kinds of fluorescence microscopy images. In order to quantify the conformations and dynamics of such actin filaments, we propose a fully automated method to extract actin networks from images and analyze network topology. The method handles well intersecting filaments and, to some extent, overlapping filaments. First we automatically...
MicroRNAs are one type of noncoding RNA that regulate their target mRNAs before mRNAs are translated into proteins. Although it has been demonstrated that the regulation is through partial binding of the seed region of a miRNA and its targets, the mechanism of this process is not fully discovered. Some biological experiments have shown that even perfect base pairing in the seed region does not always...
Classifying documents as protein-protein interaction (PPI) relevant or not is the first step towards extracting meaningful PPI data from article content. Currently, this classification step is handled manually by expert curators. A number of text-mining methods have been proposed to tackle this problem, using abstracts without references. We propose that article references contain important information...
Analysis of protein-protein recognition is a popular issue recently, which plays a crucial role in regulation of biochemical pathways and signaling transmittal. A protein is recognized with the other protein by combining a transient complex, otherwise which will become a permanent complex. Therefore, understanding physico-chemical properties of the protein interface can offer important clues for biological...
In this paper, we exploit the level set methods to extract and analyze the feature of macromolecular field. For the 3D volume data of the field, we propose a novel variational formulation of the geometric active contour, which is composed of an external energy to drive the active contours' motion, and an internal energy which penalizes the level set function adoptively to avoid periodically re-initializing...
The following topics are dealt with: protein-protein interaction; cancer informatics; disease informatics; protein folding; gene networks; biosequence analysis; biochemical modeling; microarray analysis; biological theory; medical informatics; RNA structure; and RNA function
Due to the relatively large gap of knowledge between gene identification and gene function, the ability to construct a computational model describing gene function from sequence information has become an important area of research. In order to understand the biological role of a specific gene, we will require knowledge of the corresponding protein's structure and function. We present a support vector...
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