= Digimouse: Creation of Atlas =
 . [[Digimouse|Overview]] | [[Digimouse_Data_Acquisition|Data Acquisition]] | [[Digimouse_Registration|Registration]] | '''Creation of Atlas''' | [[Digimouse_Simulations|Simulations]] | [[Digimouse_Download|Download]]

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Digimouse is generated as a 3D whole body mouse atlas with 0.1mm cubical          voxels and a matrix size of 380x992x208 using coregistered CT and cryostat          data. The atlas data along with the raw and coregistered CT, PET and cryosections          can be downloaded from "Download" section.
||<width="175px" style="border:none;  "><<EmbedObject(anim1.swf,width=174px,height=356px,play=true, loop=true)>> ||<style="border:none;"><<BR>><<BR>><<BR>><<BR>><<BR>><<BR>>  Rendering of the organs segmented from the Cryosections with                  the registered skeleton and skin obtained from the CT data of                  Digimouse: structures shown here are:  '''''whole brain, external cerebrum, cerebellum, olfactory                  bulbs, striatum, medulla, massetter muscles, eyes, lachrymal glands,                  heart, lungs, liver, stomach, spleen, pancreas, adrenal glands,                  kidneys, testes, bladder, skeleton and skin''''' ||




Anatomy of the mouse was defined using a semi-automated curve  extraction tool implemented specifically for development of this atlas  using Matlab. This graphical user interface allowed us to load the  registered 2D cryosection slices and to segment individual organs from  these slices. The segmentations of the organs were done by the help of a  professional mouse anatomist.Anatomy of the mouse was defined using a  semi-automated curve extraction tool implemented specifically for  development of this atlas using Matlab. This graphical user interface  allowed us to load the registered 2D cryosection slices and to segment  individual organs from these slices. The segmentations of the organs  were done by the help of a professional mouse anatomist.

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