Computational neuroanatomy and gene expression: Optimal sets of marker genes for brain regions

Grange, P., Mitra, Partha P. (March 2012) Computational neuroanatomy and gene expression: Optimal sets of marker genes for brain regions. 46th Annual Conference on Information Sciences and Systems (CISS).

URL: http://ieeexplore.ieee.org/abstract/document/63109...
DOI: 10.1109/CISS.2012.6310947

Abstract

The three-dimensional data-driven Anatomic Gene Expression Atlas of the adult mouse brain consists of numerized in situ hybridization data for thousands of genes, co-registered to the Allen Reference Atlas. We propose quantitative criteria to rank genes as markers of a brain region, based on the localization of the gene expression and on its functional fitting to the shape of the region. These criteria lead to natural generalizations to sets of genes. We find sets of genes weighted with coefficients of both signs with almost perfect localization in all major regions of the left hemisphere of the brain, except the pallidum. Generalization of the fitting criterion with positivity constraint provides a lesser improvement of the markers, but requires sparser sets of genes

Item Type: Paper
Additional Information: Meeting Abstract
Subjects: organs, tissues, organelles, cell types and functions > organs types and functions > brain
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > genes, structure and function > gene expression
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > genes, structure and function
Publication Type > Meeting Abstract
CSHL Authors:
Communities: CSHL Post Doctoral Fellows
CSHL labs > Mitra lab
Depositing User: Matt Covey
Date: March 2012
Date Deposited: 30 Jan 2013 22:01
Last Modified: 21 Feb 2018 20:36
URI: http://repository.cshl.edu/id/eprint/26951

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