Vertebrate neural stem cell segmentation, tracking and lineaging with validation and editing

Mark Winter, Eric Wait, Badrinath Roysam, Susan K. Goderie, Rania Ahmed Naguib Ali, Erzsebet Kokovay, Sally Temple, Andrew R. Cohen

Research output: Contribution to journalArticlepeer-review

48 Scopus citations


This protocol and the accompanying software program called LEVER (lineage editing and validation) enable quantitative automated analysis of phase-contrast time-lapse images of cultured neural stem cells. Images are captured at 5-min intervals over a period of 5-15 d as the cells proliferate and differentiate. LEVER automatically segments, tracks and generates lineage trees of the stem cells from the image sequence. In addition to generating lineage trees capturing the population dynamics of clonal development, LEVER extracts quantitative phenotypic measurements of cell location, shape, movement and size. When available, the system can include biomolecular markers imaged using fluorescence. It then displays the results to the user for highly efficient inspection and editing to correct any errors in the segmentation, tracking or lineaging. To enable high-throughput inspection, LEVER incorporates features for rapid identification of errors and for learning from user-supplied corrections to automatically identify and correct related errors.

Original languageEnglish (US)
Pages (from-to)1942-1952
Number of pages11
JournalNature Protocols
Issue number12
StatePublished - Dec 2011
Externally publishedYes

ASJC Scopus subject areas

  • General Biochemistry, Genetics and Molecular Biology


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