Discovering Coherent Biclusters from Gene Expression Data Using Zero-Suppressed Binary Decision Diagrams
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For better understanding of genetic mechanisms underlying clinical observations, it is interesting to determine which genes and clinical traits are interrelated. In the last few years a consistent amount of research in genomics has been done concerning cor ...
One of the shortcomings of the existing clustering methods is their problems dealing with different shape and size clusters. On the other hand, most of these methods are designed for especial cluster types or have good performance dealing with particular s ...
The development of targeted treatment strategies adapted to individual patients requires identification of the different tumor classes according to their biology and prognosis. We focus here on the molecular aspects underlying these differences, in terms o ...
We propose a simple information-theoretic clustering approach based on maximizing the mutual information I(\sfx,y) between the unknown cluster labels y and the training patterns \sfx with respect to parameters of specifically constrained encoding dis ...
For better understanding of genetic mechanisms underlying clinical observations, we often want to determine which genes and clinical traits are interrelated. We introduce a computational method that can find co-clusters or groups of genes and clinical para ...
Vascular endothelial growth factor-C (VEGF-C) is considered one of the most important factors influencing lymphatic endothelial cell biology. The goal of this work was to characterize the gene expression response by lymphatic endothelial cells (LECs) to VE ...
We consider computationally reconstructing gene regulatory networks on top of the binary abstraction of gene expression state information. Unlike previous Boolean network approaches, the proposed method does not handle noisy gene expression values directly ...
Background: Proteins are the primary regulatory agents of transcription even though mRNA expression data alone, from systems like DNA microarrays, are widely used. In addition, the regulation process in genetic systems is inherently non-linear in nature, a ...
One of the most important advances in biology in recent years may be the discovery of RNAs that can regulate gene expression. As one kind of such functional noncoding RNAs, microRNAs (miRNAs) forma class of endogenous 19–23-nucleotide RNAs that can have im ...
This work addresses the problem of reducing the time between query submission and results output in a retrieval system. The goal is achieved by considering only a database fraction as small as possible during the retrieval process. Our approach is based on ...