Sparse factorizations of gene expression data guided by binding data.

Liviu Badea; Doina Tilivea

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PubMed · 15759650

Sparse factorizations of gene expression data guided by binding data.

Liviu Badea·Doina Tilivea

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Abstract

Existing clustering methods do not deal well with overlapping clusters, are unstable and do not take into account the robustness of biological systems, or more complex background knowledge such as regulator binding data. Here we describe a nonnegative sparse factorization algorithm dealing with the above problems: cluster overlaps are allowed by design, the nonnegativity constraints implicitly approximate the robustness of biological systems and regulator binding data is used to guide the factorization. Preliminary results show the feasibility of our approach.

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Algorithms Computational Biology DNA, Fungal Databases, Nucleic Acid Fungal Proteins Gene Expression Genes, Fungal Genetic Code Models, Genetic Oligonucleotide Array Sequence Analysis Saccharomyces cerevisiae Journal Article

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Liviu Badea, Doina Tilivea. 2005. Sparse factorizations of gene expression data guided by binding data.. https://pubmed.ncbi.nlm.nih.gov/15759650/

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