{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/local-migration-quantification-method-for","title":"Local migration quantification method for scratch assays","arxiv_id":"1806.09219","date":"2018-06-24","proceeding":null,"authors":[],"abstract":"Motivation: The scratch assay is a standard experimental protocol used to\ncharacterize cell migration. It can be used to identify genes that regulate\nmigration and evaluate the efficacy of potential drugs that inhibit cancer\ninvasion. In these experiments, a scratch is made on a cell monolayer and\nrecolonisation of the scratched region is imaged to quantify cell migration\nrates. A drawback of this methodology is the lack of its reproducibility\nresulting in irregular cell-free areas with crooked leading edges. Existing\nquantification methods deal poorly with such resulting irregularities present\nin the data. Results: We introduce a new quantification method that can analyse\nlow quality experimental data. By considering in-silico and in-vitro data, we\nshow that the method provides a more accurate statistical classification of the\nmigration rates than two established quantification methods. The application of\nthis method will enable the quantification of migration rates of scratch assay\ndata previously unsuitable for analysis. Availability and Implementation: The\nsource code and the implementation of the algorithm as a GUI along with an\nexample dataset and user instructions, are available in\nhttps://bitbucket.org/anavictoria-ponce/local_migration_quantification_scratch_assays/src/master/.\nThe datasets are available in\nhttps://ganymed.math.uni-heidelberg.de/~victoria/publications.shtml.","url_abs":"http://arxiv.org/abs/1806.09219v1","url_pdf":"http://arxiv.org/pdf/1806.09219v1.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"local-migration-quantification-method-for","repo_url":"https://bitbucket.org/anavictoria-ponce/local_migration_quantification_scratch_assays","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}