{"lab": {"display_title": "Stavros Lomvardas, COLUMBIA", "@type": ["Lab", "Item"], "correspondence": [{"contact_email": "c2w2ODJAY29sdW1iaWEuZWR1", "@id": "/users/472214a6-c8dd-4ac6-9dad-2995905c20ea/", "display_title": "Stavros Lomvardas"}], "title": "Stavros Lomvardas, COLUMBIA", "status": "current", "@id": "/labs/stavros-lomvardas-lab/", "uuid": "d7005432-7c8d-4a88-a10b-c0a5dcf2d861", "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.d7005432-7c8d-4a88-a10b-c0a5dcf2d861"]}}, "award": {"name": "1U01DA040582-01", "project": "4DN", "@type": ["Award", "Item"], "center_title": "NBC - Lomvardas", "@id": "/awards/1U01DA040582-01/", "uuid": "c7883cb7-0f06-4833-ba75-654d81e1415f", "description": "NBC: The stochastic and monoallelic expression of one out of a thousand olfactory receptor (OR) genes in mammals is a complex process governed by the spatial compartmentalization of active and silent OR alleles in olfactory sensory neurons (OSNs). During OSN differentiation OR loci from multiple chromosomes converge into distinct, OSN-specific nuclear foci characterized by the hallmarks of constitutive heterochromatin. Absent from these unusual nuclear bodies is the OR allele that is transcriptionally active in each OSN, which typically resides on euchromatic nuclear compartments and is surrounded by numerous enhancer elements recruited from several chromosomes. This intricate network of interchromosomal interactions is responsible for both the robust transcription of the chosen OR allele and the complete silencing of the repressed ones. The extraordinary number of OR family members and the unprecedented extent of long-range genomic interactions that culminate to the remarkable organization of the OR nucleome, make the olfactory system ideal for they study of the molecular principles that organize the mammalian nuclear architecture in vivo. For a comprehensive interrogation of the OR nucleome, we assembled a multidisciplinary team seeking to combine novel genetic manipulations with a one of a kind imaging system, a state of the art proteomics facility, and innovative genomic analyses. With CRISPR, phiC31 integrase and in utero DNA electroporation we will tag OR loci and enhancers, making the OR subgenome accessible by three novel experimental strategies: High resolution imaging by correlated soft X-ray tomography and cryo- SIM; biochemical purification by sequence specific tagging with Halo and APEX followed by sophisticated mass spectrometry; and genomic analysis of long range interactions occurring during OSN differentiation using two different DNA modifying enzymes and single molecule real time sequencing. This ambitious experimental project not only will reveal molecular mechanisms that govern the nuclear organization of OR genes but also generally applicable principles and powerful technologies for the study of the mammalian nucleome in vivo.", "status": "current", "display_title": "DECIPHERING NUCLEAR BODIES AND COMPARTMENTS THAT GOVERN SINGULAR OLFACTORY RECEPTOR EXPRESSION.", "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "files": [{"file_type_detailed": "reads (fastq)", "@type": ["FileFastq", "File", "Item"], "href": "/files-fastq/4DNFIKDTXG3H/@@download/4DNFIKDTXG3H.fastq.gz", "accession": "4DNFIKDTXG3H", "file_classification": "raw file", "status": "restricted", "file_type": "reads", "paired_end": "1", "file_size": 38531639558, "display_title": "4DNFIKDTXG3H.fastq.gz", "uuid": "6dea64d8-d1dc-477b-a041-3a57b41bcc38", "upload_key": "6dea64d8-d1dc-477b-a041-3a57b41bcc38/4DNFIKDTXG3H.fastq.gz", "@id": "/files-fastq/4DNFIKDTXG3H/", "quality_metric": {"@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "uuid": "0b799349-b2b0-4ed7-9eb8-e53cdb567ccd", "Total Sequences": 699820073, "overall_quality_status": "PASS", "Sequence length": "10-101", "display_title": "QualityMetricFastqc from 2021-02-12", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIKDTXG3H/fastqc_report.html", "status": "released", "@id": "/quality-metrics-fastqc/0b799349-b2b0-4ed7-9eb8-e53cdb567ccd/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "related_files": [{"relationship_type": "paired with", "file": {"status": "restricted", "@id": "/files-fastq/4DNFIPD1NLW9/", "file_type": "reads", "paired_end": "2", "accession": "4DNFIPD1NLW9", "display_title": "4DNFIPD1NLW9.fastq.gz", "uuid": "c452c5cd-7c13-4664-9bc9-a60175502c77", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "file_format": {"status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "@type": ["FileFormat", "Item"], "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "external_references": [], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"file_type_detailed": "reads (fastq)", "@type": ["FileFastq", "File", "Item"], "href": "/files-fastq/4DNFIPD1NLW9/@@download/4DNFIPD1NLW9.fastq.gz", "accession": "4DNFIPD1NLW9", "file_classification": "raw file", "status": "restricted", "file_type": "reads", "paired_end": "2", "file_size": 40739350822, "display_title": "4DNFIPD1NLW9.fastq.gz", "uuid": "c452c5cd-7c13-4664-9bc9-a60175502c77", "upload_key": "c452c5cd-7c13-4664-9bc9-a60175502c77/4DNFIPD1NLW9.fastq.gz", "@id": "/files-fastq/4DNFIPD1NLW9/", "quality_metric": {"@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "uuid": "d4929b52-35d6-4d67-bd8b-7f7c04940edf", "Total Sequences": 699820073, "overall_quality_status": "PASS", "Sequence length": "10-101", "display_title": "QualityMetricFastqc from 2021-02-12", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIPD1NLW9/fastqc_report.html", "status": "released", "@id": "/quality-metrics-fastqc/d4929b52-35d6-4d67-bd8b-7f7c04940edf/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "related_files": [{"relationship_type": "paired with", "file": {"status": "restricted", "@id": "/files-fastq/4DNFIKDTXG3H/", "file_type": "reads", "paired_end": "1", "accession": "4DNFIKDTXG3H", "display_title": "4DNFIKDTXG3H.fastq.gz", "uuid": "6dea64d8-d1dc-477b-a041-3a57b41bcc38", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "file_format": {"status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "@type": ["FileFormat", "Item"], "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "external_references": [], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "status": "released", "aliases": ["lomvardas-lab:experiment_2020-07-24_hi-c-on-osn-human-covid116_B1_T1"], "protocol": {"status": "released", "uuid": "063dfbb7-ab41-4b32-b38d-5df2eee6e08c", "@type": ["Protocol", "Item"], "display_title": "hOE_HiC_protocol", "@id": "/protocols/063dfbb7-ab41-4b32-b38d-5df2eee6e08c/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "accession": "4DNEX4L94HOX", "biosample": {"biosource_summary": "olfactory receptor cell", "@type": ["Biosample", "Item"], "display_title": "4DNBSMQ9LX1E", "@id": "/biosamples/4DNBSMQ9LX1E/", "modifications_summary": "None", "accession": "4DNBSMQ9LX1E", "treatments_summary": "None", "biosample_type": "primary cells", "uuid": "63b27891-1720-4257-85f3-43a7382bdecc", "status": "released", "biosource": [{"lab": {"status": "current", "@id": "/labs/stavros-lomvardas-lab/", "display_title": "Stavros Lomvardas, COLUMBIA", "@type": ["Lab", "Item"], "uuid": "d7005432-7c8d-4a88-a10b-c0a5dcf2d861", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.d7005432-7c8d-4a88-a10b-c0a5dcf2d861"]}}, "award": {"uuid": "c7883cb7-0f06-4833-ba75-654d81e1415f", "@type": ["Award", "Item"], "status": "current", "@id": "/awards/1U01DA040582-01/", "display_title": "DECIPHERING NUCLEAR BODIES AND COMPARTMENTS THAT GOVERN SINGULAR OLFACTORY RECEPTOR EXPRESSION.", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "tissue": {"@type": ["OntologyTerm", "Item"], "term_id": "UBERON:0001997", "preferred_name": "olfactory epithelium", "uuid": "9fa0e2b1-15fc-42a2-95ac-422bd8892386", "slim_terms": [{"@id": "/ontology-terms/UBERON:0000004/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "nose", "uuid": "111159bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/ontology-terms/UBERON:0000925/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "endoderm", "uuid": "111121bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/ontology-terms/UBERON:0002268/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "olfactory organ", "uuid": "111161bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/ontology-terms/UBERON:0000010/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "peripheral nervous system", "uuid": "111137bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/ontology-terms/UBERON:0001004/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "respiratory system", "uuid": "111128bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/ontology-terms/UBERON:0001032/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "sensory system", "uuid": "111135bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/ontology-terms/UBERON:0000924/", "@type": ["OntologyTerm", "Item"], "status": "released", "display_title": "ectoderm", "uuid": "111119bc-8535-4448-903e-854af460a233", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "@id": "/ontology-terms/UBERON:0001997/", "term_name": "olfactory epithelium", "synonyms": ["olfactory membrane", "main olfactory epithelium", "sensory olfactory epithelium", "olfactory sensory epithelium", "nasal cavity olfactory epithelium"], "display_title": "olfactory epithelium", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "aliases": ["lomvardas-lab:biosource_humanosn_covid116"], "accession": "4DNSR28P4EBL", "cell_line": {"uuid": "198e4fdf-d5bd-406a-b053-922543dfa652", "term_name": "olfactory receptor cell", "slim_terms": [{"display_title": "cell", "uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "status": "released", "@type": ["OntologyTerm", "Item"], "@id": "/ontology-terms/CL:0000000/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"display_title": "sensory system", "uuid": "111135bc-8535-4448-903e-854af460a233", "status": "released", "@type": ["OntologyTerm", "Item"], "@id": "/ontology-terms/UBERON:0001032/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"display_title": "cell", "uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "status": "current", "@type": ["OntologyTerm", "Item"], "@id": "/ontology-terms/GO:0005623/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "display_title": "olfactory receptor cell", "term_id": "CL:0000207", "@id": "/ontology-terms/CL:0000207/", "preferred_name": "olfactory receptor cell", "synonyms": ["Schultze's cell", "odorant receptor cell", "olfactory receptor neuron", "olfactory sensory neuron"], "status": "released", "@type": ["OntologyTerm", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "individual": {"status": "released", "@id": "/individuals-human/4DNINMN5KHIQ/", "protected_data": true, "display_title": "4DNINMN5KHIQ", "@type": ["IndividualHuman", "Individual", "Item"], "uuid": "ee56b506-4921-4a59-bfb5-9261d0bf4681", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "description": "Covid 116 Olfactory Sensory Neurons", "date_created": "2021-02-11T16:39:33.624202+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2021-03-11T22:34:01.597051+00:00"}, "biosource_type": "primary cell", "cell_line_tier": "Unclassified", "public_release": "2021-03-11", "schema_version": "2", "project_release": "2021-03-11", "biosource_vendor": {"uuid": "0d4516aa-a26c-485c-936f-aede5613c94a", "@type": ["Vendor", "Item"], "status": "released", "display_title": "Columbia University Biobank", "@id": "/vendors/columbia-university-biobank/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "@id": "/biosources/4DNSR28P4EBL/", "@type": ["Biosource", "Item"], "uuid": "ec2a0864-0112-40d2-a868-97f1fadf5ef6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "olfactory receptor cell - 4DNSR28P4EBL", "external_references": [], "biosource_name": "olfactory receptor cell", "biosource_category": ["Primary Cells"], "organism": {"status": "released", "display_title": "H. sapiens", "@type": ["Organism", "Item"], "@id": "/organisms/9606/", "name": "human", "uuid": "7745b647-ff15-4ff3-9ced-b897d4e2983c", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "pcr_cycles": 7, "sop_mapping": {"has_sop": "No"}, "date_created": "2021-02-11T16:40:06.391244+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2021-03-11T22:30:21.002309+00:00"}, "ligation_time": 30.0, "biotin_removed": "No", "digestion_time": 90.0, "public_release": "2021-03-11", "schema_version": "2", "tagging_method": "dUTP", "experiment_type": {"@type": ["ExperimentType", "Item"], "title": "in situ Hi-C", "status": "released", "@id": "/experiment-types/in-situ-hi-c/", "experiment_category": "Sequencing", "uuid": "a2920a38-cdba-4ff0-b4f0-c6bb53257747", "assay_subclass_short": "Hi-C", "display_title": "in situ Hi-C", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "ligation_volume": 0.075, "processed_files": [{"@type": ["FileProcessed", "File", "Item"], "@id": "/files-processed/4DNFIN3TOGZN/", "display_title": "4DNFIN3TOGZN.bam", "accession": "4DNFIN3TOGZN", "uuid": "5a9e1a29-b513-40f7-a614-d52a8f8cd7f0", "file_type": "alignments", "href": "/files-processed/4DNFIN3TOGZN/@@download/4DNFIN3TOGZN.bam", "upload_key": "5a9e1a29-b513-40f7-a614-d52a8f8cd7f0/4DNFIN3TOGZN.bam", "file_type_detailed": "alignments (bam)", "status": "restricted", "file_format": {"uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "@type": ["FileFormat", "Item"], "file_format": "bam", "status": "released", "display_title": "bam", "@id": "/file-formats/bam/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "file_size": 105043036996, "file_classification": "processed file", "quality_metric": {"uuid": "93e5cd54-9e25-4dd2-aa55-35e41ffeb512", "overall_quality_status": "PASS", "@id": "/quality-metrics-bamqc/93e5cd54-9e25-4dd2-aa55-35e41ffeb512/", "@type": ["QualityMetricBamqc", "QualityMetric", "Item"], "status": "released", "display_title": "QualityMetricBamqc from 2021-02-21", "quality_metric_summary": [{"title": "Total Reads", "value": "699820073", "numberType": "integer"}, {"title": "Unmapped Reads", "value": "7.411", "tooltip": "Percent of total reads (=51.86m)", "numberType": "percent"}, {"title": "Multimapped Reads", "value": "16.053", "tooltip": "Percent of total reads (=112.34m)", "numberType": "percent"}, {"title": "Duplicate Reads", "value": "28.741", "tooltip": "Percent of total reads (=201.13m)", "numberType": "percent"}, {"title": "Walks", "value": "8.341", "tooltip": "Percent of total reads (=58.38m)", "numberType": "percent"}, {"title": "Minor Contigs", "value": "0.279", "tooltip": "Percent of total reads (=1.95m)", "numberType": "percent"}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "track_and_facet_info": {"experimental_lab": "Stavros Lomvardas, COLUMBIA", "experiment_type": "in situ Hi-C", "experiment_bucket": "processed file", "assay_info": "MseI", "dataset": "Hi-C on human OSNs", "condition": "SARS-Cov2 infected", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "olfactory receptor cell", "lab_name": "4DN DCIC, HMS"}, "external_references": []}, {"open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/wfoutput/741bf863-bf37-4190-87b8-0aea61b90f1e/4DNFIET11GFD.pairs.gz", "@type": ["FileProcessed", "File", "Item"], "@id": "/files-processed/4DNFIET11GFD/", "display_title": "4DNFIET11GFD.pairs.gz", "accession": "4DNFIET11GFD", "uuid": "741bf863-bf37-4190-87b8-0aea61b90f1e", "file_type": "contact list-replicate", "href": "/files-processed/4DNFIET11GFD/@@download/4DNFIET11GFD.pairs.gz", "upload_key": "741bf863-bf37-4190-87b8-0aea61b90f1e/4DNFIET11GFD.pairs.gz", "file_type_detailed": "contact list-replicate (pairs)", "status": "released", "file_format": {"uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "@type": ["FileFormat", "Item"], "file_format": "pairs", "status": "released", "display_title": "pairs", "@id": "/file-formats/pairs/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "file_size": 5700096129, "file_classification": "processed file", "quality_metric": {"uuid": "3de723de-835e-4e40-ab8d-229837a07c75", "overall_quality_status": "PASS", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIET11GFD/pairsqc_report.html", "@id": "/quality-metrics-pairsqc/3de723de-835e-4e40-ab8d-229837a07c75/", "Total reads": 276105393, "@type": ["QualityMetricPairsqc", "QualityMetric", "Item"], "status": "released", "display_title": "QualityMetricPairsqc from 2021-02-25", "quality_metric_summary": [{"title": "Filtered Reads", "value": "276105393", "numberType": "integer"}, {"title": "Cis reads (>20kb)", "value": "29.566", "tooltip": "Percent of filtered reads (=81.63m)", "numberType": "percent"}, {"title": "Short cis reads", "value": "30.404", "tooltip": "Percent of filtered reads (=83.95m)", "numberType": "percent"}, {"title": "Trans Reads", "value": "40.03", "tooltip": "Percent of filtered reads (=110.53m)", "numberType": "percent"}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "track_and_facet_info": {"experimental_lab": "Stavros Lomvardas, COLUMBIA", "experiment_type": "in situ Hi-C", "experiment_bucket": "processed file", "assay_info": "MseI", "dataset": "Hi-C on human OSNs", "condition": "SARS-Cov2 infected", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "olfactory receptor cell", "lab_name": "4DN DCIC, HMS"}, "external_references": []}], "project_release": "2021-03-11", "digestion_enzyme": {"display_title": "MseI", "uuid": "61a4e377-ec84-41de-9ca6-a3842afde971", "@id": "/enzymes/MseI/", "name": "MseI", "@type": ["Enzyme", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "library_prep_kit": "Nugen Ovation Ultralow kit", "crosslinking_time": 10.0, "enzyme_lot_number": "NEB", "biosample_quantity": 109000.0, "crosslinking_method": "1% Formaldehyde", "fragmentation_method": "sonication", "ligation_temperature": 25.0, "digestion_temperature": 37.0, "biosample_quantity_units": "cells", "crosslinking_temperature": 25.0, "fragment_size_selection_method": "SPRI beads", "@id": "/experiments-hi-c/4DNEX4L94HOX/", "@type": ["ExperimentHiC", "Experiment", "Item"], "uuid": "48bc49e3-afab-459b-8a70-e0c52d453b9c", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "in situ Hi-C on olfactory receptor cell with MseI - 4DNEX4L94HOX", "external_references": [], "experiment_sets": [{"uuid": "3f69f219-227f-4d81-bace-291261ab60cb", "status": "released", "accession": "4DNESQ9ZWU97", "display_title": "4DNESQ9ZWU97", "@id": "/experiment-set-replicates/4DNESQ9ZWU97/", "@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "experimentset_type": "replicate", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "produced_in_pub": {"abstract": "SARS-CoV-2 infects less than 1% of cells in the human body, yet it can cause severe damage in a variety of organs. Thus, deciphering the non-cell-autonomous effects of SARS-CoV-2 infection is imperative for understanding the cellular and  molecular disruption it elicits. Neurological and cognitive defects are among the least understood symptoms of COVID-19 patients, with olfactory dysfunction being  their most common sensory deficit. Here, we show that both in humans and hamsters, SARS-CoV-2 infection causes widespread downregulation of olfactory receptors (ORs) and of their signaling components. This non-cell-autonomous effect is preceded by a dramatic reorganization of the neuronal nuclear architecture, which results in dissipation of genomic compartments harboring OR genes. Our data provide a potential mechanism by which SARS-CoV-2 infection alters the cellular morphology and the transcriptome of cells it cannot infect, offering insight to its systemic effects in olfaction and beyond.", "uuid": "580ed421-772a-44ba-8650-77babd1da2b1", "short_attribution": "Zazhytska M et al. (2022)", "journal": "Cell", "authors": ["Zazhytska M", "Kodra A", "Hoagland DA", "Frere J", "Fullard JF", "Shayya H", "McArthur NG", "Moeller R", "Uhl S", "Omer AD", "Gottesman ME", "Firestein S", "Gong Q", "Canoll PD", "Goldman JE", "Roussos P", "tenOever BR", "Jonathan B Overdevest", "Lomvardas S"], "ID": "PMID:35180380", "@id": "/publications/580ed421-772a-44ba-8650-77babd1da2b1/", "date_published": "2022-03-17", "display_title": "Zazhytska M et al. (2022) PMID:35180380", "title": "Non-cell-autonomous disruption of nuclear architecture as a potential cause of COVID-19-induced anosmia.", "status": "current", "@type": ["Publication", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "publications_of_exp": [{"display_title": "Zazhytska M et al. (2022) PMID:35180380", "authors": ["Zazhytska M", "Kodra A", "Hoagland DA", "Frere J", "Fullard JF", "Shayya H", "McArthur NG", "Moeller R", "Uhl S", "Omer AD", "Gottesman ME", "Firestein S", "Gong Q", "Canoll PD", "Goldman JE", "Roussos P", "tenOever BR", "Jonathan B Overdevest", "Lomvardas S"], "@type": ["Publication", "Item"], "date_published": "2022-03-17", "journal": "Cell", "short_attribution": "Zazhytska M et al. (2022)", "ID": "PMID:35180380", "uuid": "580ed421-772a-44ba-8650-77babd1da2b1", "abstract": "SARS-CoV-2 infects less than 1% of cells in the human body, yet it can cause severe damage in a variety of organs. Thus, deciphering the non-cell-autonomous effects of SARS-CoV-2 infection is imperative for understanding the cellular and  molecular disruption it elicits. Neurological and cognitive defects are among the least understood symptoms of COVID-19 patients, with olfactory dysfunction being  their most common sensory deficit. Here, we show that both in humans and hamsters, SARS-CoV-2 infection causes widespread downregulation of olfactory receptors (ORs) and of their signaling components. This non-cell-autonomous effect is preceded by a dramatic reorganization of the neuronal nuclear architecture, which results in dissipation of genomic compartments harboring OR genes. Our data provide a potential mechanism by which SARS-CoV-2 infection alters the cellular morphology and the transcriptome of cells it cannot infect, offering insight to its systemic effects in olfaction and beyond.", "status": "current", "@id": "/publications/580ed421-772a-44ba-8650-77babd1da2b1/", "title": "Non-cell-autonomous disruption of nuclear architecture as a potential cause of COVID-19-induced anosmia.", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "experiment_categorizer": {"field": "Enzyme", "value": "MseI", "combined": "Enzyme: MseI"}, "experiment_summary": "in situ Hi-C on olfactory receptor cell with MseI", "@context": "/terms/", "aggregated-items": {"badges": []}, "validation-errors": []}