{"lab": {"display_title": "4DN DCIC, HMS", "status": "current", "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "@id": "/labs/4dn-dcic-lab/", "@type": ["Lab", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "award": {"status": "current", "display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE II", "@type": ["Award", "Item"], "uuid": "71171a4e-dca1-44cb-8375-fafd896c6923", "@id": "/awards/2U01CA200059-06/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "title": "multiplexed FISH", "status": "released", "cfde_term": {"status": "released", "@id": "/ontology-terms/OBI:0000185/", "uuid": "111124bc-8535-4448-903e-854af460a233", "display_title": "Imaging", "@type": ["OntologyTerm", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "other_tags": ["Single Cell"], "date_created": "2021-03-15T19:58:38.414276+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2023-06-05T17:16:55.954064+00:00"}, "schema_version": "1", "static_content": [{"content": {"@id": "/static-sections/a9ec948a-2eba-4e75-95b9-6c02718055b5/", "content": "**Multiplexed FISH**\n\nMultiplexed FISH methods are high-throughput, sequential imaging experiments that use fluorophore-labelled oligonucleotides (imaging probes) on fixed samples.\nBy repeating many cycles of (1) imaging probe hybridization, (2) signal detection and (3) signal removal, a high number of targets can be imaged.\n\nThese experiments are often multi-modal, targeting different molecule species simultaneously:\nlibraries of primary oligonucleotide probes (e.g. Oligopaints) can be designed to target many genomic loci at different resolutions, or a large number of RNA transcripts, while oligonucleotide-conjugated antibodies can target proteins.\nRegardless of the target, all primary probes contain oligonucleotide handles that can be recognized by imaging probes during the sequential imaging routines.\nMultiplexing can be further improved by using multiple fluorophores and combinatorial barcoding schemes.\n\nThese techniques can be applied to study the spatial organization of the genome (e.g. chromatin tracing), its transcriptional output, as well as its spatial proximity to nucleoli, nuclear speckles, nuclear lamina, etc.\nMultiplexed FISH technologies include: MERFISH, MINA, OligoFISSEQ, OligoSTORM, ORCA, seqFISH+, and others.", "content_as_html": "<div class=\"markdown-container\"><p><strong>Multiplexed FISH</strong></p>\n<p>Multiplexed FISH methods are high-throughput, sequential imaging experiments that use fluorophore-labelled oligonucleotides (imaging probes) on fixed samples.\nBy repeating many cycles of (1) imaging probe hybridization, (2) signal detection and (3) signal removal, a high number of targets can be imaged.</p>\n<p>These experiments are often multi-modal, targeting different molecule species simultaneously:\nlibraries of primary oligonucleotide probes (e.g. Oligopaints) can be designed to target many genomic loci at different resolutions, or a large number of RNA transcripts, while oligonucleotide-conjugated antibodies can target proteins.\nRegardless of the target, all primary probes contain oligonucleotide handles that can be recognized by imaging probes during the sequential imaging routines.\nMultiplexing can be further improved by using multiple fluorophores and combinatorial barcoding schemes.</p>\n<p>These techniques can be applied to study the spatial organization of the genome (e.g. chromatin tracing), its transcriptional output, as well as its spatial proximity to nucleoli, nuclear speckles, nuclear lamina, etc.\nMultiplexed FISH technologies include: MERFISH, MINA, OligoFISSEQ, OligoSTORM, ORCA, seqFISH+, and others.</p></div>", "uuid": "a9ec948a-2eba-4e75-95b9-6c02718055b5", "name": "item-page-headers.ExperimentType.multiplexed-FISH", "lab": {"@type": ["Lab", "Item"], "status": "current", "@id": "/labs/4dn-dcic-lab/", "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "display_title": "4DN DCIC, HMS", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "title": "Assay Description", "@type": ["StaticSection", "UserContent", "Item"], "display_title": "Assay Description", "options": {"filetype": "md", "collapsible": false, "default_open": true}, "filetype": "md", "award": {"display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE II", "status": "current", "uuid": "71171a4e-dca1-44cb-8375-fafd896c6923", "@id": "/awards/2U01CA200059-06/", "@type": ["Award", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.owner", "userid.e4a22298-1da4-4e59-8a65-9e661f47fb48"]}}, "location": "tab:overview"}], "experiment_name": "multiplexed-fish", "valid_item_types": ["ExperimentMic"], "experiment_category": "Microscopy", "assay_classification": "Fluorescence Localization", "assay_subclass_short": "FISH", "assay_subclassification": "Chromatin Tracing", "@id": "/experiment-types/multiplexed-fish/", "@type": ["ExperimentType", "Item"], "uuid": "bcdda46a-489d-4d22-be80-c9c21552c915", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "multiplexed FISH", "external_references": [], "@context": "/terms/", "aggregated-items": {}, "validation-errors": []}