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An end-to-end software solution for the analysis of high-throughput single-cell migration data

Paola Masuzzo, LYNN HUYCK, Aleksandra Simiczyjew, Christophe Ampe UGent, Lennart Martens UGent and Marleen Van Troys UGent (2017) SCIENTIFIC REPORTS. 7.
abstract
The systematic study of single-cell migration requires the availability of software for assisting data inspection, quality control and analysis. This is especially important for high-throughput experiments, where multiple biological conditions are tested in parallel. Although the field of cell migration can count on different computational tools for cell segmentation and tracking, downstream data visualization, parameter extraction and statistical analysis are still left to the user and are currently not possible within a single tool. This article presents a completely new module for the open-source, cross-platform CellMissy software for cell migration data management. This module is the first tool to focus specifically on single-cell migration data downstream of image processing. It allows fast comparison across all tested conditions, providing automated data visualization, assisted data filtering and quality control, extraction of various commonly used cell migration parameters, and non-parametric statistical analysis. Importantly, the module enables parameters computation both at the trajectory-and at the step-level. Moreover, this single-cell analysis module is complemented by a new data import module that accommodates multiwell plate data obtained from high-throughput experiments, and is easily extensible through a plugin architecture. In conclusion, the end-to-end software solution presented here tackles a key bioinformatics challenge in the cell migration field, assisting researchers in their highthroughput data processing.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
CANCER-CELLS, IN-VITRO, ASSAYS, INVASION, MORPHOGENESIS, MICROSCOPY, MOTILITY
journal title
SCIENTIFIC REPORTS
Sci. Rep.
volume
7
article number
42383
pages
13 pages
Web of Science type
Article
Web of Science id
000393781200001
ISSN
2045-2322
DOI
10.1038/srep42383
language
English
UGent publication?
yes
classification
A1
copyright statement
Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
id
8524217
handle
http://hdl.handle.net/1854/LU-8524217
date created
2017-06-19 12:58:36
date last changed
2017-07-03 11:04:07
@article{8524217,
  abstract     = {The systematic study of single-cell migration requires the availability of software for assisting data inspection, quality control and analysis. This is especially important for high-throughput experiments, where multiple biological conditions are tested in parallel. Although the field of cell migration can count on different computational tools for cell segmentation and tracking, downstream data visualization, parameter extraction and statistical analysis are still left to the user and are currently not possible within a single tool. This article presents a completely new module for the open-source, cross-platform CellMissy software for cell migration data management. This module is the first tool to focus specifically on single-cell migration data downstream of image processing. It allows fast comparison across all tested conditions, providing automated data visualization, assisted data filtering and quality control, extraction of various commonly used cell migration parameters, and non-parametric statistical analysis. Importantly, the module enables parameters computation both at the trajectory-and at the step-level. Moreover, this single-cell analysis module is complemented by a new data import module that accommodates multiwell plate data obtained from high-throughput experiments, and is easily extensible through a plugin architecture. In conclusion, the end-to-end software solution presented here tackles a key bioinformatics challenge in the cell migration field, assisting researchers in their highthroughput data processing.},
  articleno    = {42383},
  author       = {Masuzzo, Paola and HUYCK, LYNN and Simiczyjew, Aleksandra and Ampe, Christophe and Martens, Lennart and Van Troys, Marleen},
  issn         = {2045-2322},
  journal      = {SCIENTIFIC REPORTS},
  keyword      = {CANCER-CELLS,IN-VITRO,ASSAYS,INVASION,MORPHOGENESIS,MICROSCOPY,MOTILITY},
  language     = {eng},
  pages        = {13},
  title        = {An end-to-end software solution for the analysis of high-throughput single-cell migration data},
  url          = {http://dx.doi.org/10.1038/srep42383},
  volume       = {7},
  year         = {2017},
}

Chicago
Masuzzo, Paola, LYNN HUYCK, Aleksandra Simiczyjew, Christophe Ampe, Lennart Martens, and Marleen Van Troys. 2017. “An End-to-end Software Solution for the Analysis of High-throughput Single-cell Migration Data.” Scientific Reports 7.
APA
Masuzzo, P., HUYCK, L., Simiczyjew, A., Ampe, C., Martens, L., & Van Troys, M. (2017). An end-to-end software solution for the analysis of high-throughput single-cell migration data. SCIENTIFIC REPORTS, 7.
Vancouver
1.
Masuzzo P, HUYCK L, Simiczyjew A, Ampe C, Martens L, Van Troys M. An end-to-end software solution for the analysis of high-throughput single-cell migration data. SCIENTIFIC REPORTS. 2017;7.
MLA
Masuzzo, Paola, LYNN HUYCK, Aleksandra Simiczyjew, et al. “An End-to-end Software Solution for the Analysis of High-throughput Single-cell Migration Data.” SCIENTIFIC REPORTS 7 (2017): n. pag. Print.