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Freeware tool for analysing numbers and sizes of cell colonies

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cris.lastimport.scopus2024-02-12T19:42:27Z
dc.abstract.enThe clonogenic cell survival assay is a basic method to study the cytotoxic effect of radiation and chemical toxins. In large experimental setups, counting of colonies by eye is tiresome and prone to bias. Moreover, it is often interesting to quantify the size of individual colonies. Such analyses are largely facilitated by computerised image analysis systems. Although a number of such systems exist, they all focus on enumerating colonies and not on analysing the colony size. We have developed a new software package for both counting colonies and plotting their size distributions. The software called count and Plot HIstograms of Colony Size (countPHICS) consists of two parts: (1) a macro written for ImageJ which analyses computerised images of cell culture dishes or 6-well plates, counts colonies, estimates their size and saves the results in a text file; (2) a program written with QT Creator which reads the text file, plots histograms of colony size distribution and fits the best function. The full program is freely available at: http://www.fuw.edu.pl/\textasciitildebbrzozow/FizMed/countPHICS.html. In conclusion, our new publically available software will facilitate colony counting and provide additional information on the colony growth rate, which is relevant especially for radiosensitisation studies.
dc.affiliationUniwersytet Warszawski
dc.contributor.authorBrzozowska-Wardecka, Beata
dc.contributor.authorLundholm, Lovisa
dc.contributor.authorKaźmierczak, Urszula
dc.contributor.authorGinter, Józef
dc.contributor.authorGałecki, Maciej
dc.contributor.authorTartas, Adrianna
dc.date.accessioned2024-01-25T01:20:07Z
dc.date.available2024-01-25T01:20:07Z
dc.date.issued2019
dc.description.financeNie dotyczy
dc.identifier.doi10.1007/S00411-018-00772-Z
dc.identifier.issn0301-634X
dc.identifier.urihttps://repozytorium.uw.edu.pl//handle/item/107476
dc.languageeng
dc.pbn.affiliationphysical sciences
dc.relation.ispartofRadiation and Environmental Biophysics
dc.rightsClosedAccess
dc.sciencecloudnosend
dc.subject.enClonogenic cell survival assay Colony counter Colony size histogram countPHICS
dc.titleFreeware tool for analysing numbers and sizes of cell colonies
dc.typeJournalArticle
dspace.entity.typePublication