Digital correction of motion artefacts in microscopy image sequences collected from living animals using rigid and nonrigid registration

K. S. Lorenz, P. Salama, K. W. Dunn, E. J. Delp

Research output: Contribution to journalArticle

13 Scopus citations


Digital image analysis is a fundamental component of quantitative microscopy. However, intravital microscopy presents many challenges for digital image analysis. In general, microscopy volumes are inherently anisotropic, suffer from decreasing contrast with tissue depth, lack object edge detail and characteristically have low signal levels. Intravital microscopy introduces the additional problem of motion artefacts, resulting from respiratory motion and heartbeat from specimens imaged in vivo. This paper describes an image registration technique for use with sequences of intravital microscopy images collected in time-series or in 3D volumes. Our registration method involves both rigid and nonrigid components. The rigid registration component corrects global image translations, whereas the nonrigid component manipulates a uniform grid of control points defined by B-splines. Each control point is optimized by minimizing a cost function consisting of two parts: a term to define image similarity, and a term to ensure deformation grid smoothness. Experimental results indicate that this approach is promising based on the analysis of several image volumes collected from the kidney, lung and salivary gland of living rodents.

Original languageEnglish (US)
Pages (from-to)148-160
Number of pages13
JournalJournal of Microscopy
Issue number2
StatePublished - Feb 1 2012



  • In vivo imaging
  • Intravital microscopy
  • Multiphoton microscopy
  • Non-rigid image registration
  • Two-photon microscopy

ASJC Scopus subject areas

  • Histology
  • Pathology and Forensic Medicine

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