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Mapping Alzheimer's Disease Variants to Their Target Genes Using Computational Analysis of Chromatin Configuration
Published on: January 9, 2020
A special local clustering algorithm for identifying the genes associated with Alzheimer's disease
Chao-Yang Pang1, Wei Hu, Ben-Qiong Hu
1Biomedical Informatics and Cheminformatics Group, Conjugate and Medicinal Chemistry Laboratory, Department of Radiology, Brigham and Women's Hospital, Harvard Medical School, Boston, MA 02115, USA. cpang@bwh.harvard.edu
A novel special local clustering (SLC) algorithm identifies genes potentially linked to Alzheimer's disease (AD). By analyzing gene expression patterns, SLC can pinpoint genes associated with AD progression.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- Clustering algorithms group similar data points.
- Local clustering separates distinct data groups for localized analysis.
- Compact classes represent tightly grouped similar elements.
Purpose of the Study:
- To introduce a novel clustering algorithm, the special local clustering (SLC) algorithm.
- To apply the SLC algorithm to gene microarray data for Alzheimer's disease (AD) research.
- To identify genes potentially associated with AD by analyzing expression patterns.
Main Methods:
- Mathematical manipulation to define the local clustering feature.
- Development and application of the special local clustering (SLC) algorithm.
- Processing of gene microarray data from Alzheimer's disease (AD) patients.
Main Results:
- The SLC algorithm successfully grouped genes with similar expression patterns.
- Significantly varied gene expression values were identified as isolated points.
- Genes in compact classes in control data but isolated in AD data were flagged as possibly AD-associated.
Conclusions:
- The special local clustering (SLC) algorithm is a novel approach for gene expression analysis in AD.
- SLC can identify potential AD-associated genes by detecting deviations from normal expression patterns.
- This study highlights a rare application of clustering algorithms in identifying disease-associated genes, specifically for Alzheimer's disease.
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