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Pipeline for the Creation of Surface-based Averaged Brain Atlases
 

Summary: Pipeline for the Creation of Surface-based
Averaged Brain Atlases
Anja Kuß Hans-Christian Hege Sabine Krofczik Jana Borner
Zuse Institut Berlin
Takustraße 7
14195 Berlin, Germany
Freie Universität Berlin
Königin-Luise-Str. 28/30
14195 Berlin, Germany
kuss@zib.de
hege@zib.de
sabine@krofczik.de
boerner@neurobiologie.fu-berlin.de
ABSTRACT
Digital atlases of the brain serve as a spatial reference frame which can be used to relate data from different
image modalities and experiments. In this paper we describe a standardized pipeline for the creation of extendable
surface-based anatomical insect brain atlases from 3D image data of a population of individuals. The pipeline
consists of the major steps imaging and preprocessing, segmentation, averaging, surface reconstruction, and surface
simplification. At first, 3D image data sets from confocal microscopy are resized, stitched, and initially displayed
using standard image processing and visualization tools. Then brain structures, such as neuropils and neurons, are

  

Source: Andrzejak, Artur - Konrad-Zuse-Zentrum für Informationstechnik Berlin
Menzel, Randolf - Institut für Biologie - Institut für Biologie, Freie Universität Berlin

 

Collections: Biology and Medicine; Computer Technologies and Information Sciences