{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Lamberti WF"],"funding":["National Institutes of Health","National Institute of General Medical Sciences"],"pagination":["3387-3398"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9260447"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["20"],"pubmed_abstract":["Higher-order chromatin structures have functional impacts on gene regulation and cell identity determination. Using high-throughput sequencing (HTS)-based methods like Hi-C, active or inactive compartments and open or closed topologically associating domain (TAD) structures can be identified on a cell population level. Recently developed high-resolution three-dimensional (3D) molecular imaging techniques such as 3D electron microscopy with in situ hybridization (3D-EMSIH) and 3D structured illumination microscopy (3D-SIM) enable direct detection of physical representations of chromatin structures in a single cell. However, computational analysis of 3D image data with explainability and interpretability on functional characteristics of chromatin structures is still challenging. We developed"],"journal":["Computational and structural biotechnology journal"],"pubmed_title":["Extracting physical characteristics of higher-order chromatin structures from 3D image data."],"pmcid":["PMC9260447"],"funding_grant_id":["R35GM133712"],"pubmed_authors":["Lamberti WF","Zang C"],"additional_accession":[]},"is_claimable":false,"name":"Extracting physical characteristics of higher-order chromatin structures from 3D image data.","description":"Higher-order chromatin structures have functional impacts on gene regulation and cell identity determination. Using high-throughput sequencing (HTS)-based methods like Hi-C, active or inactive compartments and open or closed topologically associating domain (TAD) structures can be identified on a cell population level. Recently developed high-resolution three-dimensional (3D) molecular imaging techniques such as 3D electron microscopy with in situ hybridization (3D-EMSIH) and 3D structured illumination microscopy (3D-SIM) enable direct detection of physical representations of chromatin structures in a single cell. However, computational analysis of 3D image data with explainability and interpretability on functional characteristics of chromatin structures is still challenging. We developed","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022","modification":"2025-04-04T03:06:08.073Z","creation":"2025-04-04T03:06:08.073Z"},"accession":"S-EPMC9260447","cross_references":{"pubmed":["35832633"],"doi":["10.1016/j.csbj.2022.06.018"]}}