CleanEx: new data extraction and merging tools based on MeSH term annotation
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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 ...
Identification of the regulatory structures in genetic networks and the formulation of mechanistic models in the form of wiring diagrams is one of the significant objectives of expression profiling using DNA microarray technologies and it requires the deve ...
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 ...
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 ...
Ants display a range of fascinating behaviors, a remarkable level of intra-species phenotypic plasticity and many other interesting characteristics. Here we present a new tool to study the molecular mechanisms underlying these traits: a tentatively annotat ...
Metastasis is a multistep process that represents the final stage in cancer progression and heralds a terminal disease state. Understanding the molecular changes required for the establishment of metastases that are common or specific to a particular locat ...
Regulatory networks involving different cell types control inflammation, morphogenesis and tissue homeostasis. Cell-type-specific transcriptional profiling offers a powerful tool for analyzing such cross-talk but is often hampered by mingling of cells with ...
This tutorial paper considers the problem of reconstructing Genetic Regulatory Networks (GRNs) from gene expression measurements. Among various modeling frameworks that have been proposed for these biological systems, we focus on PieceWise Affine (PWA) mod ...
BACKGROUND: The Affymetrix technology is nowadays a well-established method for the analysis of gene expression profiles in cancer research studies. However, changes in gene expression levels are not the only way to link genes and disease. The existence of ...
Biochips are emerging as a useful tool for high-throughput acquisition of biological data and continue to grow in information quality and in discovering new applications. Recent advances include CMOS-based integrated biosensor arrays for deoxyribonucleic a ...
Institute of Electrical and Electronics Engineers2006
