{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["7(7)"],"submitter":["Fernandez-Gutierrez MM"],"pubmed_abstract":["<h4>Background</h4>In vitro scratch assays have been widely used to study the influence of bioactive substances on the processes of cell migration and proliferation that are involved in re-epithelialization. The development of high-throughput microscopy and image analysis has enabled scratch assays to become compatible with high-throughput research. However, effective processing and in-depth analysis of such high-throughput image datasets are far from trivial and require integration of multiple image processing and data extraction software tools.<h4>Findings</h4>We developed and implemented a kinetic re-epithelialization analysis pipeline (KREAP) in Galaxy. The KREAP toolbox incorporates freely available image analysis tools and automatically performs image segmentation and feature extract"],"journal":["GigaScience"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC6048990"],"repository":["biostudies-literature"],"pubmed_title":["KREAP: an automated Galaxy platform to quantify in vitro re-epithelialization kinetics."],"pmcid":["PMC6048990"],"pubmed_authors":["van Zessen DBH","Kleerebezem M","Stubbs AP","van Baarlen P","Fernandez-Gutierrez MM"],"additional_accession":[]},"is_claimable":false,"name":"KREAP: an automated Galaxy platform to quantify in vitro re-epithelialization kinetics.","description":"<h4>Background</h4>In vitro scratch assays have been widely used to study the influence of bioactive substances on the processes of cell migration and proliferation that are involved in re-epithelialization. The development of high-throughput microscopy and image analysis has enabled scratch assays to become compatible with high-throughput research. However, effective processing and in-depth analysis of such high-throughput image datasets are far from trivial and require integration of multiple image processing and data extraction software tools.<h4>Findings</h4>We developed and implemented a kinetic re-epithelialization analysis pipeline (KREAP) in Galaxy. The KREAP toolbox incorporates freely available image analysis tools and automatically performs image segmentation and feature extract","dates":{"release":"2018-01-01T00:00:00Z","publication":"2018 Jul","modification":"2026-05-04T16:51:07.423Z","creation":"2026-04-07T20:41:24.104Z"},"accession":"S-EPMC6048990","cross_references":{"pubmed":["29961849"],"doi":["10.1093/gigascience/giy078"]}}