home news gallery staff research publications teaching software join lab contact

Nonuniform temporal alignment of slice sequences for four- dimensional imaging of cyclically deforming embryonic structures

M. Liebling, J. Vermot, A. S. Forouhar, M. Gharib, M. E. Dickinson, S. E. Fraser,

in Proceedings of the 3rd IEEE International Symposium on Biomedical Imaging: Macro to Nano (ISBI'06), Arlington, VA, USA, April 6-9, 2006, pp. 1156-1159.
Download: PDF
Supplemental material (movies)

Abstract The temporal alignment of nongated slice-sequences acquired at different axial positions in the living embryonic zebrafish heart permits the reconstruction of dynamic, three-dimensional data. This approach overcomes the current acquisition-speed limitation of confocal microscopes for real-time three-dimensional imaging of fast processes. Current synchronization methods align and uniformly scale the data in time, but do not compensate for slight variations in the heart rhythm that occur within a heartbeat. Therefore, they impose constraints on the admissible data quality. Here, we derive a nonuniform registration procedure based on the minimization of the absolute value of the intensity difference between adjacent slice-sequence pairs. The method compensates for temporal intra-sample variations and allows the processing of a wider range of data to build functional, dynamic models of the beating embryonic heart. We show reconstructions from data acquired in living, fluorescent zebrafish embryos.

@InProceedings{ liebling.vermot.ea:06,
  author = "Liebling, M. and Vermot, J. and Forouhar, A.S. and
    Gharib, M. and Dickinson, M.E. and Fraser, S.E.",
  title = "Nonuniform temporal alignment of slice sequences for four-dimensional
    imaging of cyclically deforming embryonic structures",
  booktitle = "Proceedings of the 3rd {IEEE} International Symposium on
    Biomedical Imaging: {M}acro to Nano ({ISBI'06})",
  year = "2006",
  editor = "",
  volume = "",
  series = "",
  pages = "1156--1159",
  address = "Arlington, VA, USA",
  month = "April~6--9,",
  organization = "",
  publisher = "",
  note = ""

Copyright © 2006 IEEE. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from IEEE. This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder.