Integration of multiple genomic imaging data for the study of schizophrenia using joint nonnegative matrix factorization

Min Wang, Ting Zhu Huang, Vince D. Calhoun, Jian Fang, Yu Ping Wang

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Schizophrenia (SZ) is a complex disease caused by a lot genetic variants, epigenetic and brain region abnormalities. In this study, we adopted a joint nonnegative matrix factorization method to integrate three datasets including single nucleotide polymorphism (SNP), brain activity measured by functional magnetic resonance imaging (fMRI) and DNA Methylation to identify multi-dimensional modules associated with SZ. They are then used to study the coordination between regulatory mechanisms at multiple levels. This method projects multiple types of data onto a common feature space, in which heterogeneous variables with large coefficients on the same projected bases form a multi-dimensional module. The genomic factors in such modules have significant correlations and likely functional associations with brain activities. We applied this method to the real data analysis and identified multi-dimensional modules including SNP, fMRI and DNA methylation sites. These selected biomarkers were finally used to identify genes and voxels, which were confirmed to be significantly associated with SZ.

Original languageEnglish (US)
Title of host publication2017 IEEE International Conference on Acoustics, Speech, and Signal Processing, ICASSP 2017 - Proceedings
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages1083-1087
Number of pages5
ISBN (Electronic)9781509041176
DOIs
StatePublished - Jun 16 2017
Event2017 IEEE International Conference on Acoustics, Speech, and Signal Processing, ICASSP 2017 - New Orleans, United States
Duration: Mar 5 2017Mar 9 2017

Publication series

NameICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings
ISSN (Print)1520-6149

Other

Other2017 IEEE International Conference on Acoustics, Speech, and Signal Processing, ICASSP 2017
Country/TerritoryUnited States
CityNew Orleans
Period3/5/173/9/17

Keywords

  • Feature selection
  • Joint nonnegative matrix factorization
  • Methylation
  • SNP
  • fMRI

ASJC Scopus subject areas

  • Software
  • Signal Processing
  • Electrical and Electronic Engineering

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