Abstract
Estimation of internal mouse anatomy is required for quantitative bioluminescence or fluorescence tomography. However, only surface range data can be recovered from all-optical systems. These data are at times sparse or incomplete. We present a method for fitting an elastically deformable mouse atlas to surface topographic range data acquired by an optical system. In this method, we first match the postures of a deformable atlas and the range data of the mouse being imaged. This is achieved by aligning manually identified landmarks. We then minimize the asymmetric L2 pseudo-distance between the surface of the deformable atlas and the surface topography range data. Once this registration is accomplished, the internal anatomy of the atlas is transformed to the coordinate system of the range data using elastic energy minimization. We evaluated our method by using it to register a digital mouse atlas to a surface model produced from a manually labeled CT mouse data set. Dice coefficents indicated excellent agreement in the brain and heart, with fair agreement in the kidneys and bladder. We also present example results produced using our method to align the digital mouse atlas to surface range data.
| Original language | English (US) |
|---|---|
| Title of host publication | Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009 |
| Pages | 366-369 |
| Number of pages | 4 |
| DOIs | |
| State | Published - 2009 |
| Event | 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009 - Boston, MA, United States Duration: Jun 28 2009 → Jul 1 2009 |
Other
| Other | 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009 |
|---|---|
| Country | United States |
| City | Boston, MA |
| Period | 6/28/09 → 7/1/09 |
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Keywords
- Deformable atlas
- Mouse registration
- Optical tomography
ASJC Scopus subject areas
- Biomedical Engineering
- Radiology Nuclear Medicine and imaging
Cite this
Posture matching and elastic registration of a mouse atlas to surface topography range data. / Joshi, A.; Chaudhari, Abhijit; Li, Changqing; Shattuck, D. W.; Dutta, J.; Leahy, R. M.; Toga, A. W.
Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009. 2009. p. 366-369 5193060.Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
}
TY - GEN
T1 - Posture matching and elastic registration of a mouse atlas to surface topography range data
AU - Joshi, A.
AU - Chaudhari, Abhijit
AU - Li, Changqing
AU - Shattuck, D. W.
AU - Dutta, J.
AU - Leahy, R. M.
AU - Toga, A. W.
PY - 2009
Y1 - 2009
N2 - Estimation of internal mouse anatomy is required for quantitative bioluminescence or fluorescence tomography. However, only surface range data can be recovered from all-optical systems. These data are at times sparse or incomplete. We present a method for fitting an elastically deformable mouse atlas to surface topographic range data acquired by an optical system. In this method, we first match the postures of a deformable atlas and the range data of the mouse being imaged. This is achieved by aligning manually identified landmarks. We then minimize the asymmetric L2 pseudo-distance between the surface of the deformable atlas and the surface topography range data. Once this registration is accomplished, the internal anatomy of the atlas is transformed to the coordinate system of the range data using elastic energy minimization. We evaluated our method by using it to register a digital mouse atlas to a surface model produced from a manually labeled CT mouse data set. Dice coefficents indicated excellent agreement in the brain and heart, with fair agreement in the kidneys and bladder. We also present example results produced using our method to align the digital mouse atlas to surface range data.
AB - Estimation of internal mouse anatomy is required for quantitative bioluminescence or fluorescence tomography. However, only surface range data can be recovered from all-optical systems. These data are at times sparse or incomplete. We present a method for fitting an elastically deformable mouse atlas to surface topographic range data acquired by an optical system. In this method, we first match the postures of a deformable atlas and the range data of the mouse being imaged. This is achieved by aligning manually identified landmarks. We then minimize the asymmetric L2 pseudo-distance between the surface of the deformable atlas and the surface topography range data. Once this registration is accomplished, the internal anatomy of the atlas is transformed to the coordinate system of the range data using elastic energy minimization. We evaluated our method by using it to register a digital mouse atlas to a surface model produced from a manually labeled CT mouse data set. Dice coefficents indicated excellent agreement in the brain and heart, with fair agreement in the kidneys and bladder. We also present example results produced using our method to align the digital mouse atlas to surface range data.
KW - Deformable atlas
KW - Mouse registration
KW - Optical tomography
UR - http://www.scopus.com/inward/record.url?scp=70449362062&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=70449362062&partnerID=8YFLogxK
U2 - 10.1109/ISBI.2009.5193060
DO - 10.1109/ISBI.2009.5193060
M3 - Conference contribution
SN - 9781424439324
SP - 366
EP - 369
BT - Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009
ER -