{"id":"https://openalex.org/W2963761043","doi":"https://doi.org/10.1038/s41587-019-0183-2","title":"Spatial metagenomic characterization of microbial biogeography in the gut","display_name":"Spatial metagenomic characterization of microbial biogeography in the gut","publication_year":2019,"publication_date":"2019-07-22","ids":{"openalex":"https://openalex.org/W2963761043","doi":"https://doi.org/10.1038/s41587-019-0183-2","mag":"2963761043","pmid":"https://pubmed.ncbi.nlm.nih.gov/31332325","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/6679743"},"language":"en","primary_location":{"id":"doi:10.1038/s41587-019-0183-2","doi":"https://doi.org/10.1038/s41587-019-0183-2","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s41587-019-0183-2","pdf_url":null,"source":{"id":"https://openalex.org/S106963461","display_name":"Nature Biotechnology","issn_l":"0733-222X","issn":["0733-222X","1087-0156","1546-1696","2331-3684"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Biotechnology","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6679743","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054522273","display_name":"Ravi U. Sheth","orcid":"https://orcid.org/0000-0002-9556-3441","observed_orcids":["https://orcid.org/0000-0002-9556-3441"]},"institutions":[{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]},{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ravi U. Sheth","raw_affiliation_strings":["Department of Systems Biology, Columbia University Medical Center, New York, NY, USA","Integrated Program in Cellular, Molecular, and Biomedical Studies, Columbia University, New York, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-9556-3441","affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Columbia University Medical Center, New York, NY, USA","institution_ids":["https://openalex.org/I2799503643"]},{"raw_affiliation_string":"Integrated Program in Cellular, Molecular, and Biomedical Studies, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064591982","display_name":"Mingqiang Li","orcid":"https://orcid.org/0000-0002-5178-4138","observed_orcids":["https://orcid.org/0000-0002-5178-4138"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mingqiang Li","raw_affiliation_strings":["Department of Biomedical Engineering, Columbia University, New York, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-5178-4138","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050655848","display_name":"Weiqian Jiang","orcid":"https://orcid.org/0000-0002-6643-910X","observed_orcids":["https://orcid.org/0000-0002-6643-910X"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weiqian Jiang","raw_affiliation_strings":["Department of Biomedical Engineering, Columbia University, New York, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066080208","display_name":"Peter A. Sims","orcid":"https://orcid.org/0000-0002-3921-4837","observed_orcids":["https://orcid.org/0000-0002-3921-4837"]},"institutions":[{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peter A. Sims","raw_affiliation_strings":["Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY, USA","Department of Systems Biology, Columbia University Medical Center, New York, NY, USA","Sulzberger Columbia Genome Center, Columbia University Medical Center, New York, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY, USA","institution_ids":["https://openalex.org/I2799503643"]},{"raw_affiliation_string":"Department of Systems Biology, Columbia University Medical Center, New York, NY, USA","institution_ids":["https://openalex.org/I2799503643"]},{"raw_affiliation_string":"Sulzberger Columbia Genome Center, Columbia University Medical Center, New York, NY, USA","institution_ids":["https://openalex.org/I2799503643"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050822671","display_name":"Kam W. Leong","orcid":"https://orcid.org/0000-0002-8133-4955","observed_orcids":["https://orcid.org/0000-0002-8133-4955","https://orcid.org/0009-0007-6612-5542"]},"institutions":[{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]},{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kam W. Leong","raw_affiliation_strings":["Department of Biomedical Engineering, Columbia University, New York, NY, USA","Department of Systems Biology, Columbia University Medical Center, New York, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]},{"raw_affiliation_string":"Department of Systems Biology, Columbia University Medical Center, New York, NY, USA","institution_ids":["https://openalex.org/I2799503643"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011136095","display_name":"Harris H. Wang","orcid":"https://orcid.org/0000-0003-2164-4318","observed_orcids":["https://orcid.org/0000-0003-2164-4318"]},"institutions":[{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Harris H. Wang","raw_affiliation_strings":["Department of Pathology and Cell Biology, Columbia University Medical Center, New York, NY, USA. hw2429@cumc.columbia.edu","Department of Systems Biology, Columbia University Medical Center, New York, NY, USA. hw2429@cumc.columbia.edu","Department of Systems Biology, Columbia University Medical Center, New York, NY, USA"],"raw_orcid":"https://orcid.org/0000-0003-2164-4318","affiliations":[{"raw_affiliation_string":"Department of Pathology and Cell Biology, Columbia University Medical Center, New York, NY, USA. hw2429@cumc.columbia.edu","institution_ids":["https://openalex.org/I2799503643"]},{"raw_affiliation_string":"Department of Systems Biology, Columbia University Medical Center, New York, NY, USA. hw2429@cumc.columbia.edu","institution_ids":["https://openalex.org/I2799503643"]},{"raw_affiliation_string":"Department of Systems Biology, Columbia University Medical Center, New York, NY, USA","institution_ids":["https://openalex.org/I2799503643"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5011136095"],"corresponding_institution_ids":["https://openalex.org/I2799503643"],"apc_list":{"value":12690,"currency":"USD","value_usd":12690},"apc_paid":null,"fwci":5.4101,"has_fulltext":false,"cited_by_count":147,"citation_normalized_percentile":{"value":0.97315458,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"37","issue":"8","first_page":"877","last_page":"883"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9771000146865845,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9771000146865845,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.015599999576807022,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.0017999999690800905,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/gut-microbiota","display_name":"gut microbiota","score":0.8769999742507935},{"id":"https://openalex.org/keywords/microbial-biogeography","display_name":"microbial biogeography","score":0.9919999837875366},{"id":"https://openalex.org/keywords/cryofracture","display_name":"cryofracture","score":0.8199999928474426},{"id":"https://openalex.org/keywords/16s-rrna","display_name":"16S rRNA","score":0.7310000061988831},{"id":"https://openalex.org/keywords/bacteroidales","display_name":"Bacteroidales","score":0.7870000004768372},{"id":"https://openalex.org/keywords/mouse-intestine","display_name":"mouse intestine","score":0.9160000085830688}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8061456680297852},{"id":"https://openalex.org/C123575903","wikidata":"https://www.wikidata.org/wiki/Q52106","display_name":"Biogeography","level":2,"score":0.5175458788871765},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.514633297920227},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4836246073246002},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.35498446226119995},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.31572794914245605},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1628967821598053},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11693593859672546}],"mesh":[{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004269","descriptor_name":"DNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D046210","descriptor_name":"Microfluidic Analytical Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1038/s41587-019-0183-2","doi":"https://doi.org/10.1038/s41587-019-0183-2","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s41587-019-0183-2","pdf_url":null,"source":{"id":"https://openalex.org/S106963461","display_name":"Nature Biotechnology","issn_l":"0733-222X","issn":["0733-222X","1087-0156","1546-1696","2331-3684"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Biotechnology","raw_type":"journal-article"},{"id":"pmid:31332325","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31332325","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature biotechnology","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6679743","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6679743","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Nat Biotechnol","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:6679743","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6679743","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Nat Biotechnol","raw_type":"Text"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G4079593314","display_name":"Ecological dynamics and metabolic interactions in thegut microbiome across space and time","funder_award_id":"R01DK118044","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G4914392823","display_name":"Training in Cellular, Molecular and Biomedical Studies","funder_award_id":"T32GM008224","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5184671025","display_name":"A Microfluidic System for Image-Guided RNA-Seq of Single Cells in Glioblastoma","funder_award_id":"K01EB016071","funder_id":"https://openalex.org/F4320337363","funder_display_name":"National Institute of Biomedical Imaging and Bioengineering"},{"id":"https://openalex.org/G5342985501","display_name":"A synthetic biology approach to analyze evolution of programmed bacterial death","funder_award_id":"R01GM110494","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G9000860994","display_name":"Micron-scale Spatial Metagenomic Mapping of Microbial Biogeography in the Gastrointestinal Tract","funder_award_id":"R01AI132403","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"},{"id":"https://openalex.org/F4320337363","display_name":"National Institute of Biomedical Imaging and Bioengineering","ror":"https://ror.org/00372qc85"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":58,"referenced_works":["https://openalex.org/W1668035141","https://openalex.org/W1701869895","https://openalex.org/W1852244784","https://openalex.org/W1902150932","https://openalex.org/W1936774573","https://openalex.org/W1952026831","https://openalex.org/W1961184135","https://openalex.org/W2015554529","https://openalex.org/W2017402185","https://openalex.org/W2030521878","https://openalex.org/W2033170006","https://openalex.org/W2035775871","https://openalex.org/W2072970694","https://openalex.org/W2076507262","https://openalex.org/W2088533694","https://openalex.org/W2088833470","https://openalex.org/W2091100016","https://openalex.org/W2091627137","https://openalex.org/W2092083061","https://openalex.org/W2102384105","https://openalex.org/W2102686780","https://openalex.org/W2102868720","https://openalex.org/W2105018820","https://openalex.org/W2109628725","https://openalex.org/W2114385847","https://openalex.org/W2117457769","https://openalex.org/W2126452774","https://openalex.org/W2129675095","https://openalex.org/W2132926880","https://openalex.org/W2135256281","https://openalex.org/W2135937351","https://openalex.org/W2138084574","https://openalex.org/W2152885278","https://openalex.org/W2161332823","https://openalex.org/W2162667876","https://openalex.org/W2164035292","https://openalex.org/W2166562121","https://openalex.org/W2167073771","https://openalex.org/W2187089797","https://openalex.org/W2197368019","https://openalex.org/W2252298505","https://openalex.org/W2296588405","https://openalex.org/W2335822530","https://openalex.org/W2335934832","https://openalex.org/W2396688407","https://openalex.org/W2396861954","https://openalex.org/W2397246897","https://openalex.org/W2406725268","https://openalex.org/W2473313158","https://openalex.org/W2484230073","https://openalex.org/W2564176045","https://openalex.org/W2565803617","https://openalex.org/W2605479728","https://openalex.org/W2606802599","https://openalex.org/W2607489768","https://openalex.org/W2763048132","https://openalex.org/W2800593054","https://openalex.org/W2962091781"],"related_works":["https://openalex.org/W4407090862","https://openalex.org/W4414740662","https://openalex.org/W3157282513","https://openalex.org/W2606802599","https://openalex.org/W3197041464","https://openalex.org/W4417261520","https://openalex.org/W2752243324","https://openalex.org/W3214267369","https://openalex.org/W6948861516","https://openalex.org/W7134032448"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":17},{"year":2025,"cited_by_count":28},{"year":2024,"cited_by_count":19},{"year":2023,"cited_by_count":15},{"year":2022,"cited_by_count":22},{"year":2021,"cited_by_count":25},{"year":2020,"cited_by_count":17},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2019-07-30T00:00:00"}