{"id":"https://openalex.org/W4205292321","doi":"https://doi.org/10.1093/database/baab088","title":"PlantGF: an analysis and annotation platform for plant gene families","display_name":"PlantGF: an analysis and annotation platform for plant gene families","publication_year":2022,"publication_date":"2022-01-01","ids":{"openalex":"https://openalex.org/W4205292321","doi":"https://doi.org/10.1093/database/baab088","pmid":"https://pubmed.ncbi.nlm.nih.gov/35134149"},"language":"en","primary_location":{"id":"doi:10.1093/database/baab088","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baab088","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab088/44855848/baab088.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/baab088/44855848/baab088.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042168942","display_name":"Jiaxuan Li","orcid":"https://orcid.org/0000-0002-1782-5784"},"institutions":[{"id":"https://openalex.org/I74485261","display_name":"Shandong Agricultural University","ror":"https://ror.org/02ke8fw32","country_code":"CN","type":"education","lineage":["https://openalex.org/I74485261"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiaxuan Li","raw_affiliation_strings":["College of Information Science and Engineering and Agricultural Big-Data Research Center, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China"],"raw_orcid":"https://orcid.org/0000-0002-1782-5784","affiliations":[{"raw_affiliation_string":"College of Information Science and Engineering and Agricultural Big-Data Research Center, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China","institution_ids":["https://openalex.org/I74485261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018827744","display_name":"Shuai Yang","orcid":"https://orcid.org/0000-0001-5782-4148"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Shuai Yang","raw_affiliation_strings":["Seed Engineering Technology Center, YuXi ZhongYan Tobacco Seed Co., LTD, Nanxiang Road No.14 , Yuxi 653100, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Seed Engineering Technology Center, YuXi ZhongYan Tobacco Seed Co., LTD, Nanxiang Road No.14 , Yuxi 653100, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047338443","display_name":"Xiaojie Yang","orcid":"https://orcid.org/0000-0002-4242-2127"},"institutions":[{"id":"https://openalex.org/I74485261","display_name":"Shandong Agricultural University","ror":"https://ror.org/02ke8fw32","country_code":"CN","type":"education","lineage":["https://openalex.org/I74485261"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaojie Yang","raw_affiliation_strings":["Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China","institution_ids":["https://openalex.org/I74485261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089379002","display_name":"Hui Wu","orcid":"https://orcid.org/0000-0003-0923-6928"},"institutions":[{"id":"https://openalex.org/I74485261","display_name":"Shandong Agricultural University","ror":"https://ror.org/02ke8fw32","country_code":"CN","type":"education","lineage":["https://openalex.org/I74485261"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hui Wu","raw_affiliation_strings":["Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China","institution_ids":["https://openalex.org/I74485261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005218226","display_name":"Heng Tang","orcid":"https://orcid.org/0000-0002-5262-3926"},"institutions":[{"id":"https://openalex.org/I74485261","display_name":"Shandong Agricultural University","ror":"https://ror.org/02ke8fw32","country_code":"CN","type":"education","lineage":["https://openalex.org/I74485261"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Heng Tang","raw_affiliation_strings":["Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China","institution_ids":["https://openalex.org/I74485261"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019008194","display_name":"Long Yang","orcid":"https://orcid.org/0000-0002-9990-8398"},"institutions":[{"id":"https://openalex.org/I74485261","display_name":"Shandong Agricultural University","ror":"https://ror.org/02ke8fw32","country_code":"CN","type":"education","lineage":["https://openalex.org/I74485261"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Long Yang","raw_affiliation_strings":["Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China"],"raw_orcid":"https://orcid.org/0000-0002-9990-8398","affiliations":[{"raw_affiliation_string":"Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Daizong Road No.61 , Taian 271018, China","institution_ids":["https://openalex.org/I74485261"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5005218226","https://openalex.org/A5019008194"],"corresponding_institution_ids":["https://openalex.org/I74485261"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":2.1623,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.87446156,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"2022","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9878000020980835,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9878000020980835,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11247","display_name":"Plant nutrient uptake and metabolism","score":0.983299970626831,"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/T10733","display_name":"Wheat and Barley Genetics and Pathology","score":0.9771999716758728,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.7827064394950867},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.46704238653182983},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46561217308044434},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3325544595718384},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3245997428894043},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30259713530540466},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.16597992181777954}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.7827064394950867},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.46704238653182983},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46561217308044434},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3325544595718384},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3245997428894043},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30259713530540466},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.16597992181777954}],"mesh":[{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010940","descriptor_name":"Plant Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017343","descriptor_name":"Genes, Plant","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D017343","descriptor_name":"Genes, Plant","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D017343","descriptor_name":"Genes, Plant","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/baab088","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baab088","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab088/44855848/baab088.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:35134149","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35134149","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:oai:pubmedcentral.nih.gov:9278324","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9278324","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,"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/baab088","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baab088","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab088/44855848/baab088.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/G1176882839","display_name":null,"funder_award_id":"SDAIT-25-01","funder_id":"https://openalex.org/F4320317338","funder_display_name":"Innovation Team Project for Modern Agricultural Industrious Technology System of Shandong Province"}],"funders":[{"id":"https://openalex.org/F4320317338","display_name":"Innovation Team Project for Modern Agricultural Industrious Technology System of Shandong Province","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":44,"referenced_works":["https://openalex.org/W1536886974","https://openalex.org/W1709815505","https://openalex.org/W1982481323","https://openalex.org/W2012128982","https://openalex.org/W2020134788","https://openalex.org/W2038574100","https://openalex.org/W2055666215","https://openalex.org/W2118258530","https://openalex.org/W2119205648","https://openalex.org/W2122245399","https://openalex.org/W2128812898","https://openalex.org/W2130479394","https://openalex.org/W2133579817","https://openalex.org/W2138122982","https://openalex.org/W2141292707","https://openalex.org/W2152770371","https://openalex.org/W2153544371","https://openalex.org/W2158804744","https://openalex.org/W2160378127","https://openalex.org/W2237153789","https://openalex.org/W2417099323","https://openalex.org/W2460160187","https://openalex.org/W2531603316","https://openalex.org/W2559588208","https://openalex.org/W2768308516","https://openalex.org/W2781959618","https://openalex.org/W2799524357","https://openalex.org/W2804476515","https://openalex.org/W2895984795","https://openalex.org/W2898321887","https://openalex.org/W2898402099","https://openalex.org/W2900359059","https://openalex.org/W2910442120","https://openalex.org/W2912990441","https://openalex.org/W2938574745","https://openalex.org/W2946717857","https://openalex.org/W2950595506","https://openalex.org/W3093868212","https://openalex.org/W3113049731","https://openalex.org/W3160066428","https://openalex.org/W3163595068","https://openalex.org/W4210702584","https://openalex.org/W4244736178","https://openalex.org/W6632243507"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W4391375266","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191"],"abstract_inverted_index":{"Gene":[0,57],"families":[1,145,171],"contain":[2],"genes":[3],"that":[4],"come":[5],"from":[6,87],"the":[7,35,55,99,131,142,149,176,189,196,203],"same":[8],"ancestor":[9],"and":[10,14,22,48,74,128,168,182,191,212],"have":[11],"similar":[12],"sequences":[13,167],"structures.":[15],"They":[16],"perform":[17],"certain":[18],"specific":[19],"functions":[20],"within":[21],"among":[23],"different":[24],"species.":[25],"Currently,":[26],"there":[27],"is":[28,65,116,146,202],"no":[29],"complete":[30],"process":[31,108],"or":[32],"platform":[33,50,64,119,206],"for":[34,109,134,156,161,207],"rapid":[36],"analysis":[37,49,140],"of":[38,51,67,78,141,198],"plant":[39,52,89,164,209,219],"gene":[40,53,82,110,144,170,210,220],"families.":[41],"In":[42],"this":[43],"study,":[44],"a":[45,103],"comprehensive":[46,205],"query":[47],"families,":[54,211],"Plant":[56],"Family":[58],"Platform":[59],"(PlantGF),":[60],"was":[61],"constructed.":[62],"The":[63,93,118,138,159],"composed":[66],"four":[68,122],"main":[69],"parts:":[70],"Search,":[71],"Tools,":[72],"Statistics":[73,150],"Auxiliary.":[75],"A":[76,106,179],"total":[77],"2":[79],"909":[80],"580":[81],"family":[83,111],"members":[84],"were":[85],"identified":[86],"138":[88,163],"species":[90],"in":[91,98,130],"PlantGF.":[92],"data":[94,157],"can":[95,172],"be":[96,173],"queried":[97],"Search":[100],"section":[101,133],"through":[102],"user-friendly":[104],"interface.":[105],"general":[107],"analysis,":[112],"having":[113],"nine":[114],"steps,":[115],"provided.":[117],"also":[120],"includes":[121],"online":[123],"tools":[124],"(HMM-Search,":[125],"BLAST,":[126],"MAFFT":[127],"HMMER)":[129],"Tools":[132],"useful":[135,184],"additional":[136],"analyses.":[137],"statistical":[139],"relevant":[143],"shown":[147],"on":[148,175,188],"page.":[151,178],"Auxiliary":[152],"pages":[153],"are":[154,186],"provided":[155],"downloading.":[158],"datasets":[160],"all":[162],"species'":[165],"protein":[166],"their":[169],"acquired":[174],"Download":[177],"user's":[180],"manual":[181],"some":[183],"links":[185],"displayed":[187],"Manual":[190],"Links":[192],"pages,":[193],"respectively.":[194],"To":[195],"best":[197],"our":[199],"knowledge,":[200],"PlantGF":[201],"first":[204],"studying":[208],"it":[213],"will":[214],"make":[215],"important":[216],"contributions":[217],"to":[218],"family-related":[221],"research.":[222],"Database":[223],"URL:":[224],"http://biodb.sdau.edu.cn/PGF/index.html.":[225]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}