Combining gene expression and function in a spatially localized approach

Evangelia I. Zacharaki; Angeliki Skoura; Desmond J. Smith; Scott H. Faro; Li An; Vasileios Megalooikonomou

doi:10.1109/BIBM.2012.6392675

Combining gene expression and function in a spatially localized approach

Evangelia I. Zacharaki, Angeliki Skoura, Desmond J. Smith, Scott H. Faro, Li An, Vasileios Megalooikonomou

School of Medicine

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

The integration of gene expression datasets with gene function information provides valuable insights in unraveling the molecular mechanisms of the brain. In this paper, gene expression maps, acquired by the technique of voxelation, are analyzed using an atlas-based framework and the extracted spatial information is employed to organize genes in significant clusters. Gene function enrichment analysis of clusters enabled exploration of the relationships among brain regions, gene expression and gene function. In addition, the analysis revealed new function categories, for example biological process for the gene Pbx3, cellular component and biological process for the gene Ppplrlb. Our work confirms the hypothesis that genes of similar spatial expression patterns display similar functions indicating that our methodology could assist in the function identification of unannotated genes.

Original language	English (US)
Title of host publication	Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012
Pages	229-236
Number of pages	8
DOIs	https://doi.org/10.1109/BIBM.2012.6392675
State	Published - Dec 1 2012
Event	2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM2012 - Philadelphia, PA, United States Duration: Oct 4 2012 → Oct 7 2012

Publication series

Name	Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012

Other

Other	2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM2012
Country/Territory	United States
City	Philadelphia, PA
Period	10/4/12 → 10/7/12

Keywords

brain mapping
gene expression maps
gene function
gene ontology
voxelation

ASJC Scopus subject areas

Biomedical Engineering
Health Informatics

Access to Document

10.1109/BIBM.2012.6392675

Cite this

Zacharaki, E. I., Skoura, A., Smith, D. J., Faro, S. H., An, L., & Megalooikonomou, V. (2012). Combining gene expression and function in a spatially localized approach. In Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012 (pp. 229-236). Article 6392675 (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012). https://doi.org/10.1109/BIBM.2012.6392675

Combining gene expression and function in a spatially localized approach. / Zacharaki, Evangelia I.; Skoura, Angeliki; Smith, Desmond J. et al.
Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012. 2012. p. 229-236 6392675 (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Zacharaki, EI, Skoura, A, Smith, DJ, Faro, SH, An, L & Megalooikonomou, V 2012, Combining gene expression and function in a spatially localized approach. in Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012., 6392675, Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012, pp. 229-236, 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM2012, Philadelphia, PA, United States, 10/4/12. https://doi.org/10.1109/BIBM.2012.6392675

Zacharaki EI, Skoura A, Smith DJ, Faro SH, An L, Megalooikonomou V. Combining gene expression and function in a spatially localized approach. In Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012. 2012. p. 229-236. 6392675. (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012). doi: 10.1109/BIBM.2012.6392675

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Combining gene expression and function in a spatially localized approach

Abstract

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Keywords

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