Application of BT and PC-BT in Homo sapiens gene prediction
| Autor: | Soma Barman, Antara Ghosh |
|---|---|
| Rok vydání: | 2015 |
| Předmět: |
0301 basic medicine
Gene prediction Cancer 020206 networking & telecommunications 02 engineering and technology Computational biology Biology Condensed Matter Physics medicine.disease Bioinformatics Electronic Optical and Magnetic Materials 03 medical and health sciences 030104 developmental biology Hardware and Architecture Homo sapiens Principal component analysis 0202 electrical engineering electronic engineering information engineering medicine Electrical and Electronic Engineering Gene classification Gene Cancer Genome Anatomy Project Selection (genetic algorithm) |
| Zdroj: | Microsystem Technologies. 22:2691-2705 |
| ISSN: | 1432-1858 0946-7076 |
| DOI: | 10.1007/s00542-015-2573-9 |
| Popis: | Digital signal processing is gaining popularity in gene classification and prediction. Spectral content of gene is estimated using Blackman---Tukey (BT) method for identification of Homo sapiens cancer genes. A data reduction method; principal component analysis (PCA) is used prior to Blackman---Tukey method (PC-BT) for better identification of genes. Selection of proper model order is prime important in PCA method for considering the number of principal components (PCs) and the performance of the method depends on optimal selection of PCs. Cumulative percent variance and scree test residual percent variance are used as measurement metric for selection of PCs. Quality factor is used to judge the performance of the estimators. Simulation results show the clarity of spectrum plot in PC-BT method is 200 % higher than BT method. The spectral peaks observed in cancer genes are used to screen out cancer genes from healthy genes. The methods are successfully tested on breast, prostate and colon Homo sapiens. Healthy and cancer Homo sapiens genes are downloaded from Cancer Genome Anatomy Project (CGAP) site and National Centre for Biotechnology Information (NCBI) site. |
| Databáze: | OpenAIRE |
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