A semiautomated approach for artefact removal in serial tissue cryosections

L. M. Kindle, I. A. Kakadiaris, T. Ju, J. P. Carson

Research output: Contribution to journalArticlepeer-review

10 Scopus citations


Thinly sliced serial tissue sections of an organ can be imaged using optical microscopy at a resolution detailing individual cells. When the tissue sections are first subjected to in situ hybridization or immunohistochemistry, these data sets can be analysed for changes in gene expression and gene products. Such spatial information is important for understanding the functional effects of experimental or environmental challenges to the organism. However, a critical step in analysing these data sets is mitigating artefacts that result from the preparation of the tissue sections. In this paper, we describe an automated method with manual validation tools that together enable detecting and addressing artefacts including dust particles and air bubbles.

Original languageEnglish (US)
Pages (from-to)200-206
Number of pages7
JournalJournal of Microscopy
Issue number2
StatePublished - Feb 2011


  • Atlas
  • Brain
  • Gene expression
  • Histology
  • Image analysis
  • Mouse

ASJC Scopus subject areas

  • Pathology and Forensic Medicine
  • Histology


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