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With the explosion of protein sequences generated in the Post-Genomic Age, it is urgent to develop an automated method to predict protein quaternary structure. To explore this problem, we adopted an approach based on a sequence encoding descriptor by fusing PseAA (Pseudo Amino Acid) and DC (Dipeptide Composition) representing a protein sample. Here, a completely different approach, manifold learning...
Biclustering can perform simultaneous pattern classification in both row and column directions in a data matrix and is useful for DNA microarray data analysis. In this paper, a new biclustering method is introduced based on a geometrical method of identifying bicluster patterns. The Hough transform in column-pair space is used to find sub-biclusters and a hypergraph model is used to merge the sub-biclusters...
The study was to compare principle component (PC) versus partial least square (PLS) regression, the former unsupervised and the latter supervised gene component analysis, for highly complicated and correlated microarray gene expression profile. Projection of derived classifiers into independent samples for clinical phenotype prediction was evaluated as well. Previous studies had suggested that PLS...
The analysis of biological data produced by state of the art high throughput technologies like DNA microarrays presents many challenges due both to the domain itself (e.g. high dimensionality) and the technologies themselves (e.g. noisy data). In this paper we advocate the exploitation of existing biological knowledge in order to guide the cluster analysis of gene expression data. To this end we present...
Recent progress in molecular biology has provided unprecedented opportunities and challenges for phylogenomics inference. Methods based on evolutionary information such as gene content and gene order have been widely used in this field. Nevertheless, each kind of individual information can only characterize specific evolutionary event of complete genome, not all the evolutionary information. In this...
Present study has brought out a comparison of PCA and fuzzy clustering techniques in classifying protein profiles (chromatogram) of homogenates of different tissue origins: Ovarian, Cervix, Oral cancers, which were acquired using HPLC-LIF (High Performance Liquid Chromatography-Laser Induced Fluorescence) method developed in our laboratory. Study includes 11 chromatogram spectra each from oral, cervical,...
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