4822255
doi
10.1021/acsomega.0c03906
oai:zenodo.org:4822255
user-cosy-bio
user-eu
Zamora-Chimal, Criseida G.
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K. - BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K.
Postiglione, Lorena
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K.
Khazim, Mahmoud
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K. - School of Cellular and Molecular Medicine, University of Bristol, University Walk, Bristol BS8 1TD, U.K.
Pedone, Elisa
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K. - School of Cellular and Molecular Medicine, University of Bristol, University Walk, Bristol BS8 1TD, U.K.
Shannon, Barbara
BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K. - School of Biochemistry, University of Bristol, University Walk, Bristol BS8 1TD, U.K.
Fiore, Gianfranco
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K. - BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K.
Perrino, Giansimone
Telethon Institute of Genetic and Medicine Via Campi Flegrei 34, 80078 Pozzuoli, Italy
Napolitano, Sara
Telethon Institute of Genetic and Medicine Via Campi Flegrei 34, 80078 Pozzuoli, Italy
di Bernardo, Diego
Telethon Institute of Genetic and Medicine Via Campi Flegrei 34, 80078 Pozzuoli, Italy - Department of Chemical, Materials and Industrial Production Engineering, University of Naples Federico II, 80125 Naples, Italy
Savery, Nigel J.
BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K. - School of Biochemistry, University of Bristol, University Walk, Bristol BS8 1TD, U.K.
Grierson, Claire
BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K. - School of Biological Sciences, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K.
di Bernardo, Mario
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K. - BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K. - Department of EE and ICT, University of Naples Federico II, Via Claudio 21, 80125 Naples, Italy
Marucci, Lucia
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K. - BrisSynBio, Life Sciences Building, University of Bristol, Tyndall Avenue, Bristol BS8 1TQ, U.K. - School of Cellular and Molecular Medicine, University of Bristol, University Walk, Bristol BS8 1TD, U.K.
ChipSeg: An Automatic Tool to Segment Bacterial and Mammalian Cells Cultured in Microfluidic Devices
de Cesare, Irene
Department of Engineering Mathematics, University of Bristol, Woodland Road, Bristol BS8 1UB, U.K.
info:eu-repo/semantics/openAccess
Creative Commons Attribution 4.0 International
https://creativecommons.org/licenses/by/4.0/legalcode
<p><strong>Abstract</strong></p>
<p>Extracting quantitative measurements from time-lapse images is necessary in external feedback control applications, where segmentation results are used to inform control algorithms. We describe ChipSeg, a computational tool that segments bacterial and mammalian cells cultured in microfluidic devices and imaged by time-lapse microscopy, which can be used also in the context of external feedback control. The method is based on thresholding and uses the same core functions for both cell types. It allows us to segment individual cells in high cell density microfluidic devices, to quantify fluorescent protein expression over a time-lapse experiment, and to track individual mammalian cells. ChipSeg enables robust segmentation in external feedback control experiments and can be easily customized for other experimental settings and research aims.</p>
Zenodo
2021-01-18
info:eu-repo/semantics/article
4822254
user-cosy-bio
user-eu
award_title=Control Engineering of Biological Systems for Reliable Synthetic Biology Applications; award_number=766840; award_identifiers_scheme=url; award_identifiers_identifier=https://cordis.europa.eu/projects/766840; funder_id=00k4n6c32; funder_name=European Commission;
1622341244.785716
1419341
md5:18115a7f8781b105b68a933c385f1663
https://zenodo.org/records/4822255/files/De Cesare et al 2021 acsomega.pdf
public
ACS Omega
6
4
2473–2476
2021-01-18