{"id":"https://openalex.org/W4310036586","doi":"https://doi.org/10.3389/fpls.2022.1006044","title":"Validation of a high-confidence regulatory network for gene-to-NUE phenotype in field-grown rice","display_name":"Validation of a high-confidence regulatory network for gene-to-NUE phenotype in field-grown rice","publication_year":2022,"publication_date":"2022-11-25","ids":{"openalex":"https://openalex.org/W4310036586","doi":"https://doi.org/10.3389/fpls.2022.1006044","pmid":"https://pubmed.ncbi.nlm.nih.gov/36507422","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/9732682"},"language":"en","primary_location":{"id":"doi:10.3389/fpls.2022.1006044","doi":"https://doi.org/10.3389/fpls.2022.1006044","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fpls.2022.1006044","pdf_url":null,"source":{"id":"https://openalex.org/S2493613807","display_name":"Frontiers in Plant Science","issn_l":"1664-462X","issn":["1664-462X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Plant Science","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.3389/fpls.2022.1006044","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5076550421","display_name":"Carly M. Shanks","orcid":"https://orcid.org/0000-0001-6229-6845","observed_orcids":["https://orcid.org/0000-0001-6229-6845"]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Carly M. Shanks","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041110944","display_name":"Ji Huang","orcid":"https://orcid.org/0000-0002-4416-7983","observed_orcids":["https://orcid.org/0000-0002-4416-7983"]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ji Huang","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066517486","display_name":"Chia\u2010Yi Cheng","orcid":"https://orcid.org/0000-0001-5054-5525","observed_orcids":["https://orcid.org/0000-0001-5054-5525"]},"institutions":[{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]},{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["TW","US"],"is_corresponding":false,"raw_author_name":"Chia-Yi Cheng","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","Department of Life Science, College of Life Science, National Taiwan University, Taipei, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]},{"raw_affiliation_string":"Department of Life Science, College of Life Science, National Taiwan University, Taipei, Taiwan","institution_ids":["https://openalex.org/I16733864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039826876","display_name":"Hung-Jui S. Shih","orcid":"https://orcid.org/0009-0001-0015-1699","observed_orcids":["https://orcid.org/0009-0001-0015-1699"]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hung-Jui S. Shih","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047813637","display_name":"Matthew D. Brooks","orcid":"https://orcid.org/0000-0002-6081-6103","observed_orcids":["https://orcid.org/0000-0002-6081-6103"]},"institutions":[{"id":"https://openalex.org/I1312222531","display_name":"Agricultural Research Service","ror":"https://ror.org/02d2m2044","country_code":"US","type":"government","lineage":["https://openalex.org/I1312222531","https://openalex.org/I1336096307"]},{"id":"https://openalex.org/I1336096307","display_name":"United States Department of Agriculture","ror":"https://ror.org/01na82s61","country_code":"US","type":"government","lineage":["https://openalex.org/I1336096307"]},{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew D. Brooks","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","Global Change and Photosynthesis Research Unit, United States Department of Agriculture (USDA) Agricultural Research Service (ARS), Urbana, IL, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]},{"raw_affiliation_string":"Global Change and Photosynthesis Research Unit, United States Department of Agriculture (USDA) Agricultural Research Service (ARS), Urbana, IL, United States","institution_ids":["https://openalex.org/I1312222531","https://openalex.org/I1336096307"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100769244","display_name":"Jos\u00e9 Miguel \u00c1lvarez","orcid":"https://orcid.org/0000-0002-5073-7751","observed_orcids":["https://orcid.org/0000-0002-5073-7751"]},"institutions":[{"id":"https://openalex.org/I13897259","display_name":"Universidad Andr\u00e9s Bello","ror":"https://ror.org/01qq57711","country_code":"CL","type":"education","lineage":["https://openalex.org/I13897259"]},{"id":"https://openalex.org/I2802531901","display_name":"Millennium Science Initiative","ror":"https://ror.org/01c080z51","country_code":"CL","type":"government","lineage":["https://openalex.org/I2802531901"]},{"id":"https://openalex.org/I4210167034","display_name":"Millennium Institute for Integrative Biology","ror":"https://ror.org/05xcmte05","country_code":"CL","type":"other","lineage":["https://openalex.org/I4210167034"]},{"id":"https://openalex.org/I4405278216","display_name":"Agencia Nacional de Investigaci\u00f3n y Desarrollo","ror":"https://ror.org/05btm5233","country_code":"CL","type":"government","lineage":["https://openalex.org/I4387152581","https://openalex.org/I4405278216"]},{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["CL","US"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 M. Alvarez","raw_affiliation_strings":["Agencia Nacional de Investigaci\u00f3n y Desarrollo-Millennium Science Initiative Program, \u00a0Millennium Institute for Integrative Biology (iBio), Santiago, Chile","Centro de Biotecnolog\u00eda Vegetal, Facultad de Ciencias de la Vida, Universidad Andr\u00e9s Bello, Santiago, Chile","Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agencia Nacional de Investigaci\u00f3n y Desarrollo-Millennium Science Initiative Program, \u00a0Millennium Institute for Integrative Biology (iBio), Santiago, Chile","institution_ids":["https://openalex.org/I2802531901","https://openalex.org/I4210167034","https://openalex.org/I4405278216"]},{"raw_affiliation_string":"Centro de Biotecnolog\u00eda Vegetal, Facultad de Ciencias de la Vida, Universidad Andr\u00e9s Bello, Santiago, Chile","institution_ids":["https://openalex.org/I13897259"]},{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056629616","display_name":"Viviana Araus","orcid":"https://orcid.org/0000-0001-9457-431X","observed_orcids":["https://orcid.org/0000-0001-9457-431X"]},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]},{"id":"https://openalex.org/I2802531901","display_name":"Millennium Science Initiative","ror":"https://ror.org/01c080z51","country_code":"CL","type":"government","lineage":["https://openalex.org/I2802531901"]},{"id":"https://openalex.org/I4210167034","display_name":"Millennium Institute for Integrative Biology","ror":"https://ror.org/05xcmte05","country_code":"CL","type":"other","lineage":["https://openalex.org/I4210167034"]},{"id":"https://openalex.org/I4405278216","display_name":"Agencia Nacional de Investigaci\u00f3n y Desarrollo","ror":"https://ror.org/05btm5233","country_code":"CL","type":"government","lineage":["https://openalex.org/I4387152581","https://openalex.org/I4405278216"]},{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["CL","US"],"is_corresponding":false,"raw_author_name":"Viviana Araus","raw_affiliation_strings":["Agencia Nacional de Investigaci\u00f3n y Desarrollo-Millennium Science Initiative Program, \u00a0Millennium Institute for Integrative Biology (iBio), Santiago, Chile","Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Pontificia Universidad Cat\u00f3lica de Chile, Santiago, Chile","Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agencia Nacional de Investigaci\u00f3n y Desarrollo-Millennium Science Initiative Program, \u00a0Millennium Institute for Integrative Biology (iBio), Santiago, Chile","institution_ids":["https://openalex.org/I2802531901","https://openalex.org/I4210167034","https://openalex.org/I4405278216"]},{"raw_affiliation_string":"Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Pontificia Universidad Cat\u00f3lica de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I162148367"]},{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080713380","display_name":"Joseph Swift","orcid":"https://orcid.org/0000-0001-9559-1699","observed_orcids":["https://orcid.org/0000-0001-9559-1699"]},"institutions":[{"id":"https://openalex.org/I1307098950","display_name":"Salk Institute for Biological Studies","ror":"https://ror.org/03xez1567","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1307098950"]},{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joseph Swift","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]},{"raw_affiliation_string":"Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, United States","institution_ids":["https://openalex.org/I1307098950"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105350599","display_name":"Amelia Henry","orcid":"https://orcid.org/0000-0001-6255-5480","observed_orcids":["https://orcid.org/0000-0001-6255-5480"]},"institutions":[{"id":"https://openalex.org/I162210093","display_name":"International Rice Research Institute","ror":"https://ror.org/0593p4448","country_code":"PH","type":"nonprofit","lineage":["https://openalex.org/I1286583668","https://openalex.org/I162210093"]}],"countries":["PH"],"is_corresponding":false,"raw_author_name":"Amelia Henry","raw_affiliation_strings":["Rice Breeding Innovations Platform, International Rice Research Institute, Los Ba\u00f1os, Laguna, Philippines"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Rice Breeding Innovations Platform, International Rice Research Institute, Los Ba\u00f1os, Laguna, Philippines","institution_ids":["https://openalex.org/I162210093"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025597505","display_name":"Gloria M. Coruzzi","orcid":"https://orcid.org/0000-0003-2608-2166","observed_orcids":["https://orcid.org/0000-0003-2608-2166"]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gloria M. Coruzzi","raw_affiliation_strings":["Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, United States","institution_ids":["https://openalex.org/I57206974"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5025597505"],"corresponding_institution_ids":["https://openalex.org/I57206974"],"apc_list":{"value":2950,"currency":"USD","value_usd":2950},"apc_paid":{"value":2950,"currency":"USD","value_usd":2950},"fwci":1.0564,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.74304001,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":99},"biblio":{"volume":"13","issue":null,"first_page":"1006044","last_page":"1006044"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12045","display_name":"Rice Cultivation and Yield Improvement","score":0.5541999936103821,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12045","display_name":"Rice Cultivation and Yield Improvement","score":0.5541999936103821,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10184","display_name":"Plant Molecular Biology Research","score":0.12229999899864197,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.09700000286102295,"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/gene-regulatory-networks","display_name":"gene regulatory networks","score":0.7900000214576721},{"id":"https://openalex.org/keywords/nitrogen-use-efficiency","display_name":"nitrogen use efficiency","score":0.9879999756813049},{"id":"https://openalex.org/keywords/water-use-efficiency","display_name":"water use efficiency","score":0.6759999990463257},{"id":"https://openalex.org/keywords/rice","display_name":"rice","score":0.9430000185966492},{"id":"https://openalex.org/keywords/transcription-factors","display_name":"transcription factors","score":0.8069999814033508},{"id":"https://openalex.org/keywords/grain-yield","display_name":"grain yield","score":0.7459999918937683}],"concepts":[{"id":"https://openalex.org/C2778543611","wikidata":"https://www.wikidata.org/wiki/Q161426","display_name":"Oryza sativa","level":3,"score":0.7353740930557251},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5897232890129089},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5869372487068176},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5807656645774841},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5412824153900146},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.5379484295845032},{"id":"https://openalex.org/C2777923347","wikidata":"https://www.wikidata.org/wiki/Q690633","display_name":"Oryza","level":4,"score":0.4764561951160431},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.451302170753479},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.44211331009864807},{"id":"https://openalex.org/C150903083","wikidata":"https://www.wikidata.org/wiki/Q7108","display_name":"Biotechnology","level":1,"score":0.3278511166572571},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3205539584159851},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2978132665157318},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2332858145236969},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.08734133839607239}],"mesh":[],"locations_count":8,"locations":[{"id":"doi:10.3389/fpls.2022.1006044","doi":"https://doi.org/10.3389/fpls.2022.1006044","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fpls.2022.1006044","pdf_url":null,"source":{"id":"https://openalex.org/S2493613807","display_name":"Frontiers in Plant Science","issn_l":"1664-462X","issn":["1664-462X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Plant Science","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9732682","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9732682","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Front Plant Sci","raw_type":"Text"},{"id":"pmid:36507422","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36507422","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":"Frontiers in plant science","raw_type":"Journal Article"},{"id":"pmh:oai:repositorio.unab.cl:ria/49178","doi":null,"is_oa":true,"landing_page_url":"https://repositorio.unab.cl/xmlui/handle/ria/49178","pdf_url":"https://repositorio.unab.cl/bitstreams/551ecbc6-453b-4210-a8b5-b0873634647c/download","source":{"id":"https://openalex.org/S4306400858","display_name":"Repositorio Institucional Acad\u00e9mico , Sistema de Bibliotecas Universidad Andr\u00e9s Bello (UNAB) (Universidad Andr\u00e9s Bello (UNAB))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210156962","host_organization_name":"Universidad Dr. Andr\u00e9s Bello","host_organization_lineage":["https://openalex.org/I4210156962"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Art\u00edculo"},{"id":"pmh:oai:cgspace.cgiar.org:10568/127525","doi":null,"is_oa":true,"landing_page_url":"https://hdl.handle.net/10568/127525","pdf_url":null,"source":{"id":"https://openalex.org/S4306402055","display_name":"CGSPace A Repository of Agricultural Research Outputs (Consultative Group for International Agricultural Research)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1286583668","host_organization_name":"CGIAR","host_organization_lineage":["https://openalex.org/I1286583668"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Shanks, C.M., Huang, J., Cheng, C.-Y., Shih, H.-J.S., Brooks, M.D., Alvarez, J.M., Araus, V., Swift, J., Henry, A. and Coruzzi, G.M. 2022. Validation of a high-confidence regulatory network for gene-to-NUE phenotype in field-grown rice. Frontiers in Plant Science 13:1006044.","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:2a5a98b650b24810832a07c91dd50946","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/2a5a98b650b24810832a07c91dd50946","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Plant Science, Vol 13 (2022)","raw_type":"article"},{"id":"doi:10.60692/5jrp4-89553","doi":"https://doi.org/10.60692/5jrp4-89553","is_oa":true,"landing_page_url":"https://doi.org/10.60692/5jrp4-89553","pdf_url":null,"source":{"id":"https://openalex.org/S7407051682","display_name":"Greater South Information System","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},{"id":"doi:10.60692/y8k6t-7td74","doi":"https://doi.org/10.60692/y8k6t-7td74","is_oa":true,"landing_page_url":"https://doi.org/10.60692/y8k6t-7td74","pdf_url":null,"source":{"id":"https://openalex.org/S7407051682","display_name":"Greater South Information System","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.3389/fpls.2022.1006044","doi":"https://doi.org/10.3389/fpls.2022.1006044","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fpls.2022.1006044","pdf_url":null,"source":{"id":"https://openalex.org/S2493613807","display_name":"Frontiers in Plant Science","issn_l":"1664-462X","issn":["1664-462X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Plant Science","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.991100013256073,"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G268978854","display_name":null,"funder_award_id":"A16-0051","funder_id":"https://openalex.org/F4320315622","funder_display_name":"Zegar Family Foundation"},{"id":"https://openalex.org/G3361924110","display_name":"A single cell view of the spatiotemporal nitrogen response in roots","funder_award_id":"F32GM139299","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7311238881","display_name":"Hit-and-Run transcription: The impact of transient interactions in dynamic gene regulatory networks that mediate rapid nutrient signaling","funder_award_id":"R01GM121753","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7598654135","display_name":"RESEARCH-PGR:  Uncovering the molecular mechanisms that integrate nutrient and water dose sensing and impact crop production","funder_award_id":"1840761","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320311350","display_name":"Life Sciences Research Foundation","ror":"https://ror.org/0195dxj21"},{"id":"https://openalex.org/F4320315389","display_name":"Open Philanthropy Project","ror":"https://ror.org/004d1k391"},{"id":"https://openalex.org/F4320315622","display_name":"Zegar Family Foundation","ror":"https://ror.org/01yve5h66"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4310036586.pdf","grobid_xml":"https://content.openalex.org/works/W4310036586.grobid-xml"},"referenced_works_count":79,"referenced_works":["https://openalex.org/W1593297890","https://openalex.org/W1944267146","https://openalex.org/W1966327575","https://openalex.org/W1968230754","https://openalex.org/W1974909638","https://openalex.org/W1996038268","https://openalex.org/W1998362870","https://openalex.org/W2004430284","https://openalex.org/W2005659308","https://openalex.org/W2007447129","https://openalex.org/W2039177932","https://openalex.org/W2042546382","https://openalex.org/W2046206266","https://openalex.org/W2047206874","https://openalex.org/W2047476791","https://openalex.org/W2076513103","https://openalex.org/W2079584000","https://openalex.org/W2082617305","https://openalex.org/W2108756886","https://openalex.org/W2111273961","https://openalex.org/W2112446130","https://openalex.org/W2119697686","https://openalex.org/W2129403083","https://openalex.org/W2138207763","https://openalex.org/W2141292707","https://openalex.org/W2158287613","https://openalex.org/W2159598300","https://openalex.org/W2159675211","https://openalex.org/W2167057772","https://openalex.org/W2169456326","https://openalex.org/W2175161438","https://openalex.org/W2179438025","https://openalex.org/W2223336699","https://openalex.org/W2225596290","https://openalex.org/W2295510667","https://openalex.org/W2463105934","https://openalex.org/W2475051273","https://openalex.org/W2528413131","https://openalex.org/W2533355719","https://openalex.org/W2563070939","https://openalex.org/W2571128374","https://openalex.org/W2592350237","https://openalex.org/W2605787173","https://openalex.org/W2697888158","https://openalex.org/W2707932416","https://openalex.org/W2743242188","https://openalex.org/W2761669927","https://openalex.org/W2769098902","https://openalex.org/W2789402830","https://openalex.org/W2791249243","https://openalex.org/W2803763306","https://openalex.org/W2885801945","https://openalex.org/W2903596296","https://openalex.org/W2924722826","https://openalex.org/W2926872350","https://openalex.org/W2944545583","https://openalex.org/W2951912016","https://openalex.org/W2952109315","https://openalex.org/W2970229230","https://openalex.org/W2995138379","https://openalex.org/W3003508912","https://openalex.org/W3004432508","https://openalex.org/W3006364457","https://openalex.org/W3009971564","https://openalex.org/W3012219863","https://openalex.org/W3017600963","https://openalex.org/W3017642444","https://openalex.org/W3021181047","https://openalex.org/W3033475841","https://openalex.org/W3034545720","https://openalex.org/W3044839578","https://openalex.org/W3048785772","https://openalex.org/W3080521246","https://openalex.org/W3095806616","https://openalex.org/W3111048309","https://openalex.org/W3131774508","https://openalex.org/W3172577201","https://openalex.org/W3199528410","https://openalex.org/W3207188845"],"related_works":["https://openalex.org/W4410382826","https://openalex.org/W1944267146","https://openalex.org/W4379794557","https://openalex.org/W3168829023","https://openalex.org/W4417524516","https://openalex.org/W3017600963","https://openalex.org/W4407294173","https://openalex.org/W7046711143","https://openalex.org/W6948576954","https://openalex.org/W2110514596"],"abstract_inverted_index":{"Nitrogen":[0],"(N)":[1],"and":[2,61,83,144,205,299,315],"Water":[3],"(W)":[4],"-":[5,39,46,289,301],"two":[6,119,141,259],"resources":[7],"critical":[8],"for":[9,52,178,197,273,279,305],"crop":[10,84],"productivity":[11],"\u2013":[12],"are":[13],"becoming":[14],"increasingly":[15],"limited":[16],"in":[17,47,74,92,97,139,233,265,332],"soils":[18],"globally.":[19],"To":[20],"address":[21],"this":[22,57,79],"issue,":[23],"we":[24,59,106,133,170,211,275],"aim":[25],"to":[26,101,163,192,226,247],"uncover":[27],"the":[28,75,98,150,165,194,254],"gene":[29,112,168,200],"regulatory":[30],"networks":[31],"(GRNs)":[32],"that":[33,64,240,285,313],"regulate":[34,241,302],"nitrogen":[35],"use":[36],"efficiency":[37],"(NUE)":[38],"as":[40],"a":[41,50,93,155,186,234,266],"function":[42],"of":[43,189,236,258,260,319],"water":[44],"availability":[45,73],"Oryza":[48],"sativa,":[49],"staple":[51],"3.5":[53],"billion":[54],"people.":[55],"In":[56],"study,":[58],"infer":[60],"validate":[62,164],"GRNs":[63],"correlate":[65],"with":[66,127,325,335],"rice":[67,89,334],"NUE":[68,128],"phenotypes":[69],"affected":[70],"by":[71,80],"N-by-W":[72,95],"field.":[76,99],"We":[77,252],"did":[78],"exploiting":[81],"RNA-seq":[82],"phenotype":[85],"data":[86],"from":[87],"19":[88],"varieties":[90],"grown":[91],"2x2":[94],"matrix":[96],"First,":[100],"identify":[102],"gene-to-NUE":[103],"field":[104],"phenotypes,":[105],"analyzed":[107],"these":[108,140,213,261],"datasets":[109,153,177],"using":[110,149,154,175],"weighted":[111],"co-expression":[113],"network":[114,120,158,196,329],"analysis":[115,184,283],"(WGCNA).":[116],"This":[117,183,231,327],"identified":[118],"modules":[121,143],"(\"skyblue\"":[122],"&":[123],"\"grey60\")":[124],"highly":[125],"correlated":[126],"grain":[129],"yield":[130,337],"(NUEg).":[131],"Next,":[132,162,210],"focused":[134],"on":[135,217,221,338],"90":[136],"TFs":[137,180,204,215,239,264,288],"contained":[138],"NUEg":[142,222,243,263,287],"predicted":[145],"their":[146,218],"genome-wide":[147],"targets":[148,257],"N-and/or-W":[151,207],"response":[152,208],"random":[156],"forest":[157],"inference":[159],"approach":[160],"(GENIE3).":[161],"GENIE3":[166,195],"TF\u2192target":[167,199],"predictions,":[169],"performed":[171],"Precision/Recall":[172],"Analysis":[173],"(AUPR)":[174],"nine":[176],"three":[179],"validatedin":[181],"planta.":[182],"sets":[185],"precision":[187],"threshold":[188],"0.31,":[190],"used":[191],"\"prune\"":[193],"high-confidence":[198],"edges,":[201],"comprising":[202],"88":[203,214],"5,716":[206],"genes.":[209],"ranked":[212],"based":[216],"significant":[219],"influence":[220],"target":[223,244],"genes":[224,245,303],"responsive":[225,246],"N":[227,248,306],"and/or":[228,249,307],"W":[229,250,308],"signaling.":[230,309],"resulted":[232],"list":[235],"18":[237],"prioritized":[238],"551":[242],"signals.":[251],"validated":[253,328],"direct":[255],"regulated":[256],"candidate":[262],"plant":[267],"cell-based":[268],"TF":[269],"assay":[270],"called":[271],"TARGET,":[272],"which":[274],"also":[276,322],"hadin":[277],"plantadata":[278],"comparison.":[280],"Gene":[281],"ontology":[282],"revealed":[284],"6/18":[286],"OsbZIP23":[290,314],"(LOC_Os02g52780),":[291],"Oshox22":[292],"(LOC_Os04g45810),":[293],"LOB39":[294],"(LOC_Os03g41330),":[295],"Oshox13":[296],"(LOC_Os03g08960),":[297],"LOC_Os11g38870,":[298],"LOC_Os06g14670":[300],"annotated":[304],"Our":[310],"results":[311],"show":[312],"Oshox22,":[316],"known":[317],"regulators":[318],"drought":[320],"tolerance,":[321],"coordinate":[323],"W-responses":[324],"NUEg.":[326],"can":[330],"aid":[331],"developing/breeding":[333],"improved":[336],"marginal,":[339],"low":[340],"N-input,":[341],"drought-prone":[342],"soils.":[343]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2022-11-30T00:00:00"}