DOI: 10.1093/bioinformatics/btl363. Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach

Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach

10.1093/bioinformatics/btl363

Crossref journal-article

Oxford University Press (OUP)

Bioinformatics (286)

Abstract

Abstract Motivation: Network reconstruction of biological entities is very important for understanding biological processes and the organizational principles of biological systems. This work focuses on integrating both the literatures and microarray gene-expression data, and a combined literature mining and microarray analysis (LMMA) approach is developed to construct gene networks of a specific biological system. Results: In the LMMA approach, a global network is first constructed using the literature-based co-occurrence method. It is then refined using microarray data through a multivariate selection procedure. An application of LMMA to the angiogenesis is presented. Our result shows that the LMMA-based network is more reliable than the co-occurrence-based network in dealing with multiple levels of KEGG gene, KEGG Orthology and pathway. Availability: The LMMA program is available upon request. Contact: shaoli@mail.tsinghua.edu.cn Supplementary Information: Supplementary data are available at Bioinformatics online.

Bibliography

Li, S., Wu, L., & Zhang, Z. (2006). Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach. Bioinformatics, 22(17), 2143â2150.

Authors 3

Shao Li (first)
Lijiang Wu (additional)
Zhongqi Zhang (additional)

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Dates

Type	When
Created	19 years, 1 month ago (July 5, 2006, 9:54 p.m.)
Deposited	2 years, 7 months ago (Jan. 24, 2023, 4:52 a.m.)
Indexed	2 months, 3 weeks ago (June 2, 2025, 9:19 p.m.)
Issued	19 years, 1 month ago (July 4, 2006)
Published	19 years, 1 month ago (July 4, 2006)
Published Online	19 years, 1 month ago (July 4, 2006)
Published Print	18 years, 11 months ago (Sept. 1, 2006)

Funders 0

None

BibTeX

@article{Li_2006, title={Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach}, volume={22}, ISSN={1367-4803}, url={http://dx.doi.org/10.1093/bioinformatics/btl363}, DOI={10.1093/bioinformatics/btl363}, number={17}, journal={Bioinformatics}, publisher={Oxford University Press (OUP)}, author={Li, Shao and Wu, Lijiang and Zhang, Zhongqi}, year={2006}, month=jul, pages={2143–2150} }

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