Format

Send to

Choose Destination
BMC Neurol. 2018 Jan 10;18(1):5. doi: 10.1186/s12883-017-1010-3.

Revealing Alzheimer's disease genes spectrum in the whole-genome by machine learning.

Huang X1,2,3, Liu H2,3, Li X4, Guan L2,3, Li J2,3, Tellier LCAM2,3,5, Yang H2,6, Wang J2,6, Zhang J7,8,9.

Author information

1
BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, 518083, China.
2
BGI-Shenzhen, Shenzhen, 518083, China.
3
China National GeneBank, BGI-Shenzhen, Shenzhen, 518120, China.
4
College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China.
5
Department of Biology, Bioinformatics, University of Copenhagen, Copenhagen, Denmark.
6
James D. Watson Institute of Genome Sciences, Hangzhou, 310058, China.
7
BGI-Shenzhen, Shenzhen, 518083, China. zhangjg@genomics.cn.
8
China National GeneBank, BGI-Shenzhen, Shenzhen, 518120, China. zhangjg@genomics.cn.
9
Shenzhen Key Lab of Neurogenomics, BGI-Shenzhen, Shenzhen, 518120, China. zhangjg@genomics.cn.

Abstract

BACKGROUND:

Alzheimer's disease (AD) is an important, progressive neurodegenerative disease, with a complex genetic architecture. A key goal of biomedical research is to seek out disease risk genes, and to elucidate the function of these risk genes in the development of disease. For this purpose, expanding the AD-associated gene set is necessary. In past research, the prediction methods for AD related genes has been limited in their exploration of the target genome regions. We here present a genome-wide method for AD candidate genes predictions.

METHODS:

We present a machine learning approach (SVM), based upon integrating gene expression data with human brain-specific gene network data, to discover the full spectrum of AD genes across the whole genome.

RESULTS:

We classified AD candidate genes with an accuracy and the area under the receiver operating characteristic (ROC) curve of 84.56% and 94%. Our approach provides a supplement for the spectrum of AD-associated genes extracted from more than 20,000 genes in a genome wide scale.

CONCLUSIONS:

In this study, we have elucidated the whole-genome spectrum of AD, using a machine learning approach. Through this method, we expect for the candidate gene catalogue to provide a more comprehensive annotation of AD for researchers.

KEYWORDS:

Alzheimer’s disease; Gene; Machine learning

PMID:
29320986
PMCID:
PMC5763548
DOI:
10.1186/s12883-017-1010-3
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for BioMed Central Icon for PubMed Central
Loading ...
Support Center