Geometric representation of neuroanatomical data observed in mouse brain at cellular and gross levels

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Title: Geometric representation of neuroanatomical data observed in mouse brain at cellular and gross levels
Author: Koh, Wonryull
Abstract: This dissertation studies two problems related to geometric representation of neuroanatomical data : (i ) spatial representation and organization of individual neurons , and (ii ) reconstruction of three -dimensional neuroanatomical regions from sparse two -dimensional drawings . This work has been motivated by nearby development of new technology , Knife -Edge Scanning Microscopy (KESM ) , that images a whole mouse brain at cellular level in less than a month . A method is introduced to represent neuronal data observed in the mammalian brain at the cellular level using geometric primitives and spatial indexing . A data representation scheme is defined that captures the geometry of individual neurons using traditional geometric primitives , points and cross -sectional areas along a trajectory . This representation captures inferred synapses as directed links between primitives and spatially indexes observed neurons based on the locations of their cell bodies . This method provides a set of rules for acquisition , representation , and indexing of KESMgenerated data . Neuroanatomical data observed at the gross level provides the underlying regional framework for neuronal circuits . Accumulated expert knowledge on neuroanatomical organization is usually given as a series of sparse two -dimensional contours . A data structure and an algorithm are described to reconstruct separating surfaces among multiple regions from these sparse cross -sectional contours . A topology graph is defined for each region that describes the topological skeleton of the region ?s boundary surface and that shows between which contours the surface patches should be generated . A graph -directed triangulation algorithm is provided to reconstruct surface patches between contours . This graph -directed triangulation algorithm combined together with a piecewise parametric curve fitting technique ensures that abutting or shared surface patches are precisely coincident . This method overcomes limitations in i ) traditional surfaces -from -contours algorithms that assume binary , not multiple , regionalization of space , and in ii ) few existing separating surfaces algorithms that assume conversion of input into a regular volumetric grid , which is not possible with sparse inter -planar resolution .
URI: http : / /hdl .handle .net /1969 .1 /ETD -TAMU -1669
Date: 2009-05-15

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Geometric representation of neuroanatomical data observed in mouse brain at cellular and gross levels. Available electronically from http : / /hdl .handle .net /1969 .1 /ETD -TAMU -1669 .

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