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).
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: | https://repository.cshl.edu/id/eprint/26951 |
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