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(2020)", "display_title": "Su JH et al. (2020) PMID:32822575", "authors": ["Su JH", "Zheng P", "Kinrot SS", "Bintu B", "Zhuang X"], "uuid": "bd20862a-7c4c-4a95-9721-e880181da2d4", "abstract": "The 3D organization of chromatin regulates many genome functions. Our  understanding of 3D genome organization requires tools to directly visualize  chromatin conformation in its native context. Here we report an imaging  technology for visualizing chromatin organization across multiple scales in  single cells with high genomic throughput. First we demonstrate multiplexed  imaging of hundreds of genomic loci by sequential hybridization, which allows  high-resolution conformation tracing of whole chromosomes. Next we report a  multiplexed error-robust fluorescence in situ hybridization (MERFISH)-based  method for genome-scale chromatin tracing and demonstrate simultaneous imaging of  more than 1,000 genomic loci and nascent transcripts of more than 1,000 genes  together with landmark nuclear structures. Using this technology, we characterize  chromatin domains, compartments, and trans-chromosomal interactions and their  relationship to transcription in single cells. We envision broad application of  this high-throughput, multi-scale, and multi-modal imaging technology, which  provides an integrated view of chromatin organization in its native structural  and functional context.", "date_published": "2020-09-17", "@type": ["Publication", "Item"], "ID": "PMID:32822575", "@id": "/publications/bd20862a-7c4c-4a95-9721-e880181da2d4/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "publications_of_exp": [{"ID": "PMID:32822575", "@type": ["Publication", "Item"], "short_attribution": "Su JH et al. (2020)", "date_published": "2020-09-17", "status": "current", "authors": ["Su JH", "Zheng P", "Kinrot SS", "Bintu B", "Zhuang X"], "journal": "Cell", "uuid": "bd20862a-7c4c-4a95-9721-e880181da2d4", "abstract": "The 3D organization of chromatin regulates many genome functions. Our  understanding of 3D genome organization requires tools to directly visualize  chromatin conformation in its native context. Here we report an imaging  technology for visualizing chromatin organization across multiple scales in  single cells with high genomic throughput. First we demonstrate multiplexed  imaging of hundreds of genomic loci by sequential hybridization, which allows  high-resolution conformation tracing of whole chromosomes. Next we report a  multiplexed error-robust fluorescence in situ hybridization (MERFISH)-based  method for genome-scale chromatin tracing and demonstrate simultaneous imaging of  more than 1,000 genomic loci and nascent transcripts of more than 1,000 genes  together with landmark nuclear structures. Using this technology, we characterize  chromatin domains, compartments, and trans-chromosomal interactions and their  relationship to transcription in single cells. We envision broad application of  this high-throughput, multi-scale, and multi-modal imaging technology, which  provides an integrated view of chromatin organization in its native structural  and functional context.", "display_title": "Su JH et al. (2020) PMID:32822575", "title": "Genome-Scale Imaging of the 3D Organization and Transcriptional Activity of  Chromatin.", "@id": "/publications/bd20862a-7c4c-4a95-9721-e880181da2d4/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "experiment_categorizer": {"field": "Target", "value": "Chromosomes, region", "combined": "Target: Chromosomes, region"}, "experiment_summary": "multiplexed FISH on IMR-90", "@context": "/terms/", "aggregated-items": {"badges": [{"parent": "/biosamples/4DNBST3M8325/", "embedded_path": "biosample.badges", "item": {"messages": ["Biosample missing Cell Culture Details"], "badge": {"commendation": null, "warning": "Biosample Metadata Incomplete", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "@id": "/badges/biosample-metadata-incomplete/", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group."}}}]}, "validation-errors": []}