Fast network component analysis (FastNCA) for gene regulatory network reconstruction from microarray data | Zendy

Chunqi Chang | Zendy; Zhi Ding | Zendy; Yeung Sam Hung | Zendy; P. C. W. Fung | Zendy

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Fast network component analysis (FastNCA) for gene regulatory network reconstruction from microarray data

Author(s) -

Chunqi Chang,

Zhi Ding,

Yeung Sam Hung,

P. C. W. Fung

Publication year - 2008

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btn131

Subject(s) - component (thermodynamics) , gene regulatory network , microarray analysis techniques , computer science , computational biology , data mining , gene , biology , genetics , gene expression , physics , thermodynamics

Recently developed network component analysis (NCA) approach is promising for gene regulatory network reconstruction from microarray data. The existing NCA algorithm is an iterative method which has two potential limitations: computational instability and multiple local solutions. The subsequently developed NCA-r algorithm with Tikhonov regularization can help solve the first issue but cannot completely handle the second one. Here we develop a novel Fast Network Component Analysis (FastNCA) algorithm which has an analytical solution that is much faster and does not have the above limitations.

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