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Accepted (AM)Open Access (License Unspecified), Open
Journal article
Vertebrate neural stem cell segmentation, tracking and lineaging with validation and editing
Nature protocols, v 6(12), pp 1942-1952
01 Dec 2011
PMID: 22094730
Featured in Collection : UN Sustainable Development Goals @ Drexel
Abstract
T his 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.
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Details
- Title
- Vertebrate neural stem cell segmentation, tracking and lineaging with validation and editing
- Creators
- Mark Winter - University of Wisconsin–MilwaukeeEric Wait - University of Wisconsin–MilwaukeeBadrinath Roysam - University of HoustonSusan K. Goderie - Neural Stem Cell InstituteRania Ahmed Naguib Ali - Neural Stem Cell InstituteErzsebet Kokovay - Neural Stem Cell InstituteSally Temple - Neural Stem Cell InstituteAndrew R. Cohen - University of Wisconsin–Milwaukee
- Publication Details
- Nature protocols, v 6(12), pp 1942-1952
- Publisher
- Springer Nature
- Number of pages
- 11
- Grant note
- C024352 / New York State Department of Health (NYSDOH) R01EB005157 / NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH National Institute of Biomedical Imaging & Bioengineering (NIBIB) R01AG041861 / NATIONAL INSTITUTE ON AGING; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH National Institute on Aging (NIA) NS033529 / US National Institutes of Health (NIH); United States Department of Health & Human Services; National Institutes of Health (NIH) - USA R01NS033529 / NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH National Institute of Neurological Disorders & Stroke (NINDS) University of Wisconsin-Milwaukee Regenerative Research Foundation R01EB005157; R01NS076709 / NIH from the National Institute of Neurological Disorders and Stroke
- Resource Type
- Journal article
- Language
- English
- Academic Unit
- Electrical and Computer Engineering
- Web of Science ID
- WOS:000298157100010
- Scopus ID
- 2-s2.0-84859016779
- Other Identifier
- 991019296805104721
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- Collaboration types
- Domestic collaboration
- Web of Science research areas
- Biochemical Research Methods