An interactive method of anatomical segmentation and gene expression estimation for an experimental mouse brain slice

Authors:
Anton Osokin;Dmitry Vetrov;Alexey Lebedev;Vladimir Galatenko;Dmitry Kropotov;Konstantin Anokhin
Affiliations:
Moscow State University, Russia, Moscow;Moscow State University and Dorodnicyn Computing Centre of Russian Academy of Sciences, Russia, Moscow;Moscow State University, Russia, Moscow;Moscow State University, Russia, Moscow;Dorodnicyn Computing Centre of Russian Academy of Sciences, Russia, Moscow;P.K. Anokhin Institute of Normal Physiology, Russia, Moscow
Venue:
CIBB'10 Proceedings of the 7th international conference on Computational intelligence methods for bioinformatics and biostatistics
Year:
2010

Citing 3
Cited 0

Variational Methods for Multimodal Image Matching

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Neuroinformatics for Genome-Wide 3-D Gene Expression Mapping in the Mouse Brain

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3-D mouse brain model reconstruction from a sequence of 2-D slices in application to Allen brain atlas

CIBB'09 Proceedings of the 6th international conference on Computational intelligence methods for bioinformatics and biostatistics

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Abstract

We consider the problem of statistical analysis of gene expression in a mouse brain during cognitive processes. In particular we focus on the problems of anatomical segmentation of a histological brain slice and estimation of slice's gene expression level. The first problem is solved by interactive registration of an experimental brain slice into 3D brain model constructed using Allen Brain Atlas. The second problem is solved by special image filtering and further smart resolution reduction. We also describe the procedure of non-linear correction of atlas slices which improves the quality of the 3D-model significantly.