{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Randall RS"],"funding":["Project Internal Grant Agency of Masaryk University","Velux Stiftung","European Research Council","International Max Planck Research School for Biology and Computation (project","Purkyně fellowship","Czech Science Foundation"],"pagination":["277-299"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9754023"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["13(1)"],"pubmed_abstract":["Nucleus, chromatin, and chromosome organization studies heavily rely on fluorescence microscopy imaging to elucidate the distribution and abundance of structural and regulatory components. Three-dimensional (3D) image stacks are a source of quantitative data on signal intensity level and distribution and on the type and shape of distribution patterns in space. Their analysis can lead to novel insights that are otherwise missed in qualitative-only analyses. Quantitative image analysis requires specific software and workflows for image rendering, processing, segmentation, setting measurement points and reference frames and exporting target data before further numerical processing and plotting. These tasks often call for the development of customized computational scripts and require an exper"],"journal":["Nucleus (Austin, Tex.)"],"pubmed_title":["Image analysis workflows to reveal the spatial organization of cell nuclei and chromosomes."],"pmcid":["PMC9754023"],"funding_grant_id":["ERC-AdG-787074","1107","IMPRS-BAC","18-20134S","CZ.02.2.69/0.0/0.0/19_073/0016943"],"pubmed_authors":["Schubert V","Jourdain C","Desset S","Pecinka A","Baroux C","Randall RS","Panatta M","Heckmann S","Tatout C","Kubova M","Colas I","Kalyanikrishna","Mermet S","Boulaflous-Stevens A","Nowicka A","Kaduchova K","Lysak MA","Ayoub MA","Kubalova I","Santoro R","Mandakova T","Schubert D","Routh D"],"additional_accession":[]},"is_claimable":false,"name":"Image analysis workflows to reveal the spatial organization of cell nuclei and chromosomes.","description":"Nucleus, chromatin, and chromosome organization studies heavily rely on fluorescence microscopy imaging to elucidate the distribution and abundance of structural and regulatory components. Three-dimensional (3D) image stacks are a source of quantitative data on signal intensity level and distribution and on the type and shape of distribution patterns in space. Their analysis can lead to novel insights that are otherwise missed in qualitative-only analyses. Quantitative image analysis requires specific software and workflows for image rendering, processing, segmentation, setting measurement points and reference frames and exporting target data before further numerical processing and plotting. These tasks often call for the development of customized computational scripts and require an exper","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Dec","modification":"2025-04-04T19:11:15.558Z","creation":"2025-04-04T19:11:15.558Z"},"accession":"S-EPMC9754023","cross_references":{"pubmed":["36447428"],"doi":["10.1080/19491034.2022.2144013"]}}