{"id":"https://openalex.org/W2955841589","doi":"https://doi.org/10.1093/database/baz061","title":"A web-based tool for the prediction of rice transcription factor function","display_name":"A web-based tool for the prediction of rice transcription factor function","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2955841589","doi":"https://doi.org/10.1093/database/baz061","mag":"2955841589","pmid":"https://pubmed.ncbi.nlm.nih.gov/31169887"},"language":"en","primary_location":{"id":"doi:10.1093/database/baz061","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz061","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz061/28771892/baz061.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz061/28771892/baz061.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103891623","display_name":"Anil Kumar Nalini Chandran","orcid":null},"institutions":[{"id":"https://openalex.org/I35928602","display_name":"Kyung Hee University","ror":"https://ror.org/01zqcg218","country_code":"KR","type":"education","lineage":["https://openalex.org/I35928602"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Anil Kumar Nalini Chandran","raw_affiliation_strings":["Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea"],"affiliations":[{"raw_affiliation_string":"Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea","institution_ids":["https://openalex.org/I35928602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018124559","display_name":"Sunok Moon","orcid":"https://orcid.org/0000-0002-1659-5614"},"institutions":[{"id":"https://openalex.org/I35928602","display_name":"Kyung Hee University","ror":"https://ror.org/01zqcg218","country_code":"KR","type":"education","lineage":["https://openalex.org/I35928602"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Sunok Moon","raw_affiliation_strings":["Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea"],"affiliations":[{"raw_affiliation_string":"Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea","institution_ids":["https://openalex.org/I35928602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071760449","display_name":"Yo-Han Yoo","orcid":"https://orcid.org/0000-0001-9725-2826"},"institutions":[{"id":"https://openalex.org/I35928602","display_name":"Kyung Hee University","ror":"https://ror.org/01zqcg218","country_code":"KR","type":"education","lineage":["https://openalex.org/I35928602"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Yo-Han Yoo","raw_affiliation_strings":["Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea"],"affiliations":[{"raw_affiliation_string":"Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea","institution_ids":["https://openalex.org/I35928602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077175129","display_name":"Yoon-Shil Gho","orcid":null},"institutions":[{"id":"https://openalex.org/I35928602","display_name":"Kyung Hee University","ror":"https://ror.org/01zqcg218","country_code":"KR","type":"education","lineage":["https://openalex.org/I35928602"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Yoon-Shil Gho","raw_affiliation_strings":["Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea"],"affiliations":[{"raw_affiliation_string":"Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea","institution_ids":["https://openalex.org/I35928602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083056712","display_name":"Peijian Cao","orcid":"https://orcid.org/0000-0001-9991-423X"},"institutions":[{"id":"https://openalex.org/I4210094602","display_name":"Tobacco Research Institute","ror":"https://ror.org/0099xbw16","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210094602","https://openalex.org/I4210127390","https://openalex.org/I4210138501","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I2800556661","display_name":"China Tobacco","ror":"https://ror.org/030d08e08","country_code":"CN","type":"government","lineage":["https://openalex.org/I2800556661"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peijian Cao","raw_affiliation_strings":["China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute, Zhengzhou, China"],"affiliations":[{"raw_affiliation_string":"China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute, Zhengzhou, China","institution_ids":["https://openalex.org/I4210094602","https://openalex.org/I2800556661"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090255449","display_name":"Rita Sharma","orcid":"https://orcid.org/0000-0003-4342-0497"},"institutions":[{"id":"https://openalex.org/I152429107","display_name":"Jawaharlal Nehru University","ror":"https://ror.org/0567v8t28","country_code":"IN","type":"education","lineage":["https://openalex.org/I152429107"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Rita Sharma","raw_affiliation_strings":["School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi, India"],"affiliations":[{"raw_affiliation_string":"School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi, India","institution_ids":["https://openalex.org/I152429107"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004658914","display_name":"Manoj K. Sharma","orcid":"https://orcid.org/0000-0002-4768-8733"},"institutions":[{"id":"https://openalex.org/I152429107","display_name":"Jawaharlal Nehru University","ror":"https://ror.org/0567v8t28","country_code":"IN","type":"education","lineage":["https://openalex.org/I152429107"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Manoj K Sharma","raw_affiliation_strings":["School of Biotechnology, Jawaharlal Nehru University, New Delhi, India"],"affiliations":[{"raw_affiliation_string":"School of Biotechnology, Jawaharlal Nehru University, New Delhi, India","institution_ids":["https://openalex.org/I152429107"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056619719","display_name":"Pamela C. Ronald","orcid":"https://orcid.org/0000-0002-4107-1345"},"institutions":[{"id":"https://openalex.org/I53012624","display_name":"Joint BioEnergy Institute","ror":"https://ror.org/03ww55028","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I53012624"]},{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pamela C Ronald","raw_affiliation_strings":["Department of Plant Pathology and the Genome Center, University of California, Davis, CA, USA","Feedstocks Division, The Joint Bioenergy Institute, Emeryville, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Plant Pathology and the Genome Center, University of California, Davis, CA, USA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Feedstocks Division, The Joint Bioenergy Institute, Emeryville, CA, USA","institution_ids":["https://openalex.org/I53012624"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088947963","display_name":"Ki\u2010Hong Jung","orcid":"https://orcid.org/0000-0003-0427-5901"},"institutions":[{"id":"https://openalex.org/I35928602","display_name":"Kyung Hee University","ror":"https://ror.org/01zqcg218","country_code":"KR","type":"education","lineage":["https://openalex.org/I35928602"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Ki-Hong Jung","raw_affiliation_strings":["Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea"],"affiliations":[{"raw_affiliation_string":"Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea","institution_ids":["https://openalex.org/I35928602"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5056619719","https://openalex.org/A5088947963"],"corresponding_institution_ids":["https://openalex.org/I35928602","https://openalex.org/I53012624","https://openalex.org/I84218800"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.5153,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.64660554,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"2019","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.998199999332428,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.998199999332428,"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/T10184","display_name":"Plant Molecular Biology Research","score":0.9976000189781189,"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/T10303","display_name":"Photosynthetic Processes and Mechanisms","score":0.995199978351593,"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/biology","display_name":"Biology","score":0.774551272392273},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.711689829826355},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5899415612220764},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5374463200569153},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5270932912826538},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.46705734729766846},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.43099427223205566},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.42500245571136475},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3925060033798218}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.774551272392273},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.711689829826355},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5899415612220764},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5374463200569153},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5270932912826538},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.46705734729766846},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.43099427223205566},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.42500245571136475},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3925060033798218}],"mesh":[{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/database/baz061","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz061","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz061/28771892/baz061.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:31169887","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31169887","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,"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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:ark:/13030/qt80x341xn","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt80x341xn","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/80x341xn","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"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":"Database, vol 2019, iss 1","raw_type":"article"},{"id":"pmh:oai:osti.gov:2469652","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/2469652","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6553503","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6553503","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/baz061","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz061","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz061/28771892/baz061.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1286236842","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1337544421","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320337509","funder_display_name":"Biological and Environmental Research"},{"id":"https://openalex.org/G1697697046","display_name":null,"funder_award_id":"20180430","funder_id":"https://openalex.org/F4320327222","funder_display_name":"Korea Institute of Marine Science and Technology promotion"},{"id":"https://openalex.org/G2761058083","display_name":null,"funder_award_id":"GM122968","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3083819904","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G342704958","display_name":null,"funder_award_id":"funded","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G3526623491","display_name":"Collaborative Research:   Dye Tracer and Modeling Investigations of Cross-Shelf Circulation during Coastal Upwelling","funder_award_id":"0136900","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3944918260","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4115972399","display_name":null,"funder_award_id":"20180430","funder_id":"https://openalex.org/F4320322011","funder_display_name":"Ministry of Oceans and Fisheries"},{"id":"https://openalex.org/G425189044","display_name":null,"funder_award_id":"DE-AC02-05CH","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G4390664590","display_name":null,"funder_award_id":"IOS-1237975","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G4501827968","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G453002271","display_name":null,"funder_award_id":"122968","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4565140552","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4699350723","display_name":null,"funder_award_id":"DE-AC02-05CH1123","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4714635365","display_name":null,"funder_award_id":"IOS-1237975","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4841871747","display_name":null,"funder_award_id":"DE_AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4914405554","display_name":null,"funder_award_id":"1237975","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G498139845","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5010546614","display_name":null,"funder_award_id":"GM59962","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5315912995","display_name":null,"funder_award_id":"11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G5802748842","display_name":null,"funder_award_id":"DE-AC02-05CH112","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G588775484","display_name":"Mechanistic Elucidation of Thermal Runaway in Potassium-Ion Batteries","funder_award_id":"1804300","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5920067852","display_name":null,"funder_award_id":"No. 20180430","funder_id":"https://openalex.org/F4320327222","funder_display_name":"Korea Institute of Marine Science and Technology promotion"},{"id":"https://openalex.org/G6094793950","display_name":null,"funder_award_id":"IOS-1237975","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G626505518","display_name":null,"funder_award_id":"No. 201","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G6330738325","display_name":null,"funder_award_id":"DE_AC02_05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6348972864","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6429026066","display_name":null,"funder_award_id":"DE-AC02-05CH112","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6558272803","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6680449876","display_name":null,"funder_award_id":"Korea","funder_id":"https://openalex.org/F4320322011","funder_display_name":"Ministry of Oceans and Fisheries"},{"id":"https://openalex.org/G7010700621","display_name":null,"funder_award_id":"2018043004","funder_id":"https://openalex.org/F4320322011","funder_display_name":"Ministry of Oceans and Fisheries"},{"id":"https://openalex.org/G7233692708","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7340683655","display_name":null,"funder_award_id":"E-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7375886179","display_name":null,"funder_award_id":"PJ01366401","funder_id":"https://openalex.org/F4320322035","funder_display_name":"Rural Development Administration"},{"id":"https://openalex.org/G7406122311","display_name":null,"funder_award_id":"AC02-05CH1123","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7538560101","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7629237052","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337509","funder_display_name":"Biological and Environmental Research"},{"id":"https://openalex.org/G7664691372","display_name":null,"funder_award_id":"DE-AC02-05CH1123","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G7787287669","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320337509","funder_display_name":"Biological and Environmental Research"},{"id":"https://openalex.org/G7800102271","display_name":null,"funder_award_id":"IOS-1237975","funder_id":"https://openalex.org/F4320335353","funder_display_name":"National Science Foundation of Sri Lanka"},{"id":"https://openalex.org/G7803297462","display_name":null,"funder_award_id":"2018R1A4A1025158","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G7825954517","display_name":null,"funder_award_id":"DE-AC02-05CH1123","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8185555444","display_name":null,"funder_award_id":"PJ01369001","funder_id":"https://openalex.org/F4320322035","funder_display_name":"Rural Development Administration"},{"id":"https://openalex.org/G8413608756","display_name":null,"funder_award_id":"DE-AC02-05CH1123","funder_id":"https://openalex.org/F4320337509","funder_display_name":"Biological and Environmental Research"},{"id":"https://openalex.org/G8414908677","display_name":null,"funder_award_id":"DE-AC0","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8604073144","display_name":null,"funder_award_id":"No. 20180430","funder_id":"https://openalex.org/F4320322011","funder_display_name":"Ministry of Oceans and Fisheries"},{"id":"https://openalex.org/G897164627","display_name":null,"funder_award_id":"DE-AC02_05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320322011","display_name":"Ministry of Oceans and Fisheries","ror":"https://ror.org/00c5s4a53"},{"id":"https://openalex.org/F4320322035","display_name":"Rural Development Administration","ror":"https://ror.org/03xs9yg50"},{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"},{"id":"https://openalex.org/F4320327222","display_name":"Korea Institute of Marine Science and Technology promotion","ror":null},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320335353","display_name":"National Science Foundation of Sri Lanka","ror":"https://ror.org/010xaa060"},{"id":"https://openalex.org/F4320337509","display_name":"Biological and Environmental Research","ror":"https://ror.org/0114b2m14"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2955841589.pdf","grobid_xml":"https://content.openalex.org/works/W2955841589.grobid-xml"},"referenced_works_count":68,"referenced_works":["https://openalex.org/W19816169","https://openalex.org/W1481246388","https://openalex.org/W1521722837","https://openalex.org/W1567609013","https://openalex.org/W1706853913","https://openalex.org/W1848732551","https://openalex.org/W1920666167","https://openalex.org/W1973026630","https://openalex.org/W1982666875","https://openalex.org/W2004707197","https://openalex.org/W2007165628","https://openalex.org/W2012946217","https://openalex.org/W2020068381","https://openalex.org/W2027446674","https://openalex.org/W2030530458","https://openalex.org/W2042007306","https://openalex.org/W2054012543","https://openalex.org/W2057543502","https://openalex.org/W2071421211","https://openalex.org/W2071635758","https://openalex.org/W2094201044","https://openalex.org/W2094678200","https://openalex.org/W2094768677","https://openalex.org/W2100010691","https://openalex.org/W2106886651","https://openalex.org/W2111211467","https://openalex.org/W2113939168","https://openalex.org/W2115789025","https://openalex.org/W2119727185","https://openalex.org/W2122824894","https://openalex.org/W2123552972","https://openalex.org/W2129114469","https://openalex.org/W2129497875","https://openalex.org/W2130344155","https://openalex.org/W2131271579","https://openalex.org/W2135154814","https://openalex.org/W2136490527","https://openalex.org/W2137015675","https://openalex.org/W2137167825","https://openalex.org/W2137870583","https://openalex.org/W2138098955","https://openalex.org/W2138207763","https://openalex.org/W2138920781","https://openalex.org/W2151940278","https://openalex.org/W2152770371","https://openalex.org/W2152979984","https://openalex.org/W2153486423","https://openalex.org/W2161511344","https://openalex.org/W2165154634","https://openalex.org/W2165253681","https://openalex.org/W2167455933","https://openalex.org/W2175948239","https://openalex.org/W2179438025","https://openalex.org/W2280788332","https://openalex.org/W2289212394","https://openalex.org/W2302658801","https://openalex.org/W2303542186","https://openalex.org/W2336811518","https://openalex.org/W2340408884","https://openalex.org/W2529592713","https://openalex.org/W2555336727","https://openalex.org/W2611605679","https://openalex.org/W2771667690","https://openalex.org/W2951834291","https://openalex.org/W6600804497","https://openalex.org/W6628708307","https://openalex.org/W6695120148","https://openalex.org/W6696682770"],"related_works":["https://openalex.org/W2073305407","https://openalex.org/W2052655934","https://openalex.org/W104645380","https://openalex.org/W2027213253","https://openalex.org/W2023641020","https://openalex.org/W2017047508","https://openalex.org/W2165201120","https://openalex.org/W2188530857","https://openalex.org/W2041199873","https://openalex.org/W1971081588"],"abstract_inverted_index":{"Transcription":[0,50],"factors":[1],"(TFs)":[2],"are":[3],"an":[4],"important":[5],"class":[6],"of":[7,17,125,211,236],"regulatory":[8],"molecules.":[9],"Despite":[10],"their":[11,36,162,171],"importance,":[12],"only":[13],"a":[14,44,110,155,168,193,205],"small":[15],"number":[16],"genes":[18,99,108,121,130,153,191,217],"encoding":[19],"TFs":[20],"have":[21],"been":[22,220],"characterized":[23,221],"in":[24,102,114,134,154,192],"Oryza":[25],"sativa":[26],"(rice),":[27],"often":[28],"because":[29],"gene":[30,95,178],"duplication":[31],"and":[32,55,67,78,93,128,165],"functional":[33,184,234],"redundancy":[34,185],"complicate":[35],"analysis.":[37,145],"To":[38],"address":[39],"this":[40,201,226],"challenge,":[41],"we":[42,203],"developed":[43],"web-based":[45],"tool":[46],"called":[47],"the":[48,88,143,177,182,212,228],"Rice":[49],"Factor":[51],"Phylogenomics":[52],"Database":[53],"(RTFDB)":[54],"demonstrate":[56],"its":[57],"application":[58],"for":[59,208,233],"predicting":[60],"TF":[61,213],"function.":[62],"The":[63],"RTFDB":[64,89],"hosts":[65],"transcriptome":[66,175],"co-expression":[68],"analyses.":[69],"Sources":[70],"include":[71],"high-throughput":[72],"data":[73],"from":[74],"oligonucleotide":[75],"microarray":[76],"(Affymetrix":[77],"Agilent)":[79],"as":[80,82,198],"well":[81],"RNA-Seq-based":[83],"expression":[84,112,163],"profiles.":[85],"We":[86],"used":[87,159],"to":[90,116,123,136,160],"identify":[91],"tissue-specific":[92],"stress-related":[94],"expression.":[96],"Subsequently,":[97],"273":[98],"preferentially":[100],"expressed":[101],"specific":[103],"tissues":[104],"or":[105,186,214],"organs,":[106],"455":[107],"showing":[109,131],"differential":[111,132],"pattern":[113],"response":[115,135],"4":[117],"abiotic":[118],"stresses,":[119],"179":[120],"responsive":[122],"infection":[124],"various":[126,137],"pathogens":[127],"512":[129],"accumulation":[133],"hormone":[138],"treatments":[139],"were":[140],"identified":[141],"through":[142],"meta-expression":[144],"Pairwise":[146],"Pearson":[147],"correlation":[148],"coefficient":[149],"analysis":[150],"between":[151],"paralogous":[152],"phylogenetic":[156],"tree":[157],"was":[158],"assess":[161],"collinearity":[164],"thereby":[166],"provides":[167],"hint":[169],"on":[170],"genetic":[172],"redundancy.":[173],"Integrating":[174],"with":[176,240],"evolutionary":[179],"information":[180],"reveals":[181],"possible":[183],"dominance":[187],"played":[188],"by":[189],"paralog":[190],"highly":[194],"duplicated":[195],"genome":[196],"such":[197],"rice.":[199],"With":[200],"method,":[202],"estimated":[204],"predominant":[206],"role":[207],"83.3%":[209],"(65/78)":[210],"transcriptional":[215],"regulator":[216],"that":[218],"had":[219],"via":[222],"loss-of-function":[223],"studies.":[224],"In":[225],"regard,":[227],"proposed":[229],"method":[230],"is":[231],"applicable":[232],"studies":[235],"other":[237],"plant":[238],"species":[239],"annotated":[241],"genome.":[242]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":3}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
