{"id":"https://openalex.org/W2510882339","doi":"https://doi.org/10.1093/database/baw107","title":"Ricebase: a breeding and genetics platform for rice, integrating individual molecular markers, pedigrees and whole-genome-based data","display_name":"Ricebase: a breeding and genetics platform for rice, integrating individual molecular markers, pedigrees and whole-genome-based data","publication_year":2016,"publication_date":"2016-01-01","ids":{"openalex":"https://openalex.org/W2510882339","doi":"https://doi.org/10.1093/database/baw107","mag":"2510882339","pmid":"https://pubmed.ncbi.nlm.nih.gov/27515824"},"language":"en","primary_location":{"id":"doi:10.1093/database/baw107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw107","pdf_url":null,"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://doi.org/10.1093/database/baw107","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062063256","display_name":"Jeremy D. Edwards","orcid":"https://orcid.org/0000-0002-0237-0932"},"institutions":[{"id":"https://openalex.org/I4210093500","display_name":"Dale Bumpers National Rice Research Center","ror":"https://ror.org/004qeec45","country_code":"US","type":"facility","lineage":["https://openalex.org/I1312222531","https://openalex.org/I1336096307","https://openalex.org/I4210093500","https://openalex.org/I4210122704"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"J. D. Edwards","raw_affiliation_strings":["Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA jeremy.edwards@ars.usda.gov","Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA jeremy.edwards@ars.usda.gov","institution_ids":["https://openalex.org/I4210093500"]},{"raw_affiliation_string":"Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA","institution_ids":["https://openalex.org/I4210093500"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070825086","display_name":"Angela M. Baldo","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093500","display_name":"Dale Bumpers National Rice Research Center","ror":"https://ror.org/004qeec45","country_code":"US","type":"facility","lineage":["https://openalex.org/I1312222531","https://openalex.org/I1336096307","https://openalex.org/I4210093500","https://openalex.org/I4210122704"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. M. Baldo","raw_affiliation_strings":["Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA","institution_ids":["https://openalex.org/I4210093500"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018498646","display_name":"Lukas A. Mueller","orcid":"https://orcid.org/0000-0001-8640-1750"},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I87424562","display_name":"Ithaca College","ror":"https://ror.org/01kw1gj07","country_code":"US","type":"education","lineage":["https://openalex.org/I87424562"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"L. A. Mueller","raw_affiliation_strings":["Boyce Thompson Institute, Ithaca, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Boyce Thompson Institute, Ithaca, New York, USA","institution_ids":["https://openalex.org/I205783295","https://openalex.org/I87424562"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5062063256"],"corresponding_institution_ids":["https://openalex.org/I4210093500"],"apc_list":{"value":2729,"currency":"USD","value_usd":2729},"apc_paid":{"value":2729,"currency":"USD","value_usd":2729},"fwci":4.6805,"has_fulltext":false,"cited_by_count":39,"citation_normalized_percentile":{"value":0.94785952,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"2016","issue":null,"first_page":"baw107","last_page":"baw107"},"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":0.9995999932289124,"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":0.9995999932289124,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9980999827384949,"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/T12045","display_name":"Rice Cultivation and Yield Improvement","score":0.9958999752998352,"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/genome-browser","display_name":"Genome browser","score":0.6913375854492188},{"id":"https://openalex.org/keywords/germplasm","display_name":"Germplasm","score":0.6119512319564819},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6069237589836121},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5811724066734314},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5679356455802917},{"id":"https://openalex.org/keywords/pedigree-chart","display_name":"Pedigree chart","score":0.5084580183029175},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.49427056312561035},{"id":"https://openalex.org/keywords/microsatellite","display_name":"Microsatellite","score":0.46019721031188965},{"id":"https://openalex.org/keywords/reference-genome","display_name":"Reference genome","score":0.4362880289554596},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4304681122303009},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.37331074476242065},{"id":"https://openalex.org/keywords/allele","display_name":"Allele","score":0.2188214361667633},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2001468539237976}],"concepts":[{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.6913375854492188},{"id":"https://openalex.org/C2777461220","wikidata":"https://www.wikidata.org/wiki/Q589029","display_name":"Germplasm","level":2,"score":0.6119512319564819},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6069237589836121},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5811724066734314},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5679356455802917},{"id":"https://openalex.org/C22593422","wikidata":"https://www.wikidata.org/wiki/Q3242583","display_name":"Pedigree chart","level":3,"score":0.5084580183029175},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.49427056312561035},{"id":"https://openalex.org/C61320498","wikidata":"https://www.wikidata.org/wiki/Q265193","display_name":"Microsatellite","level":4,"score":0.46019721031188965},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.4362880289554596},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4304681122303009},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.37331074476242065},{"id":"https://openalex.org/C180754005","wikidata":"https://www.wikidata.org/wiki/Q80726","display_name":"Allele","level":3,"score":0.2188214361667633},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2001468539237976},{"id":"https://openalex.org/C6557445","wikidata":"https://www.wikidata.org/wiki/Q173113","display_name":"Agronomy","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","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":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/database/baw107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw107","pdf_url":null,"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:27515824","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27515824","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":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4980570","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4980570","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:databa:2016/0/baw107","is_oa":false,"landing_page_url":"http://database.oxfordjournals.org/cgi/content/short/2016/0/baw107","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/database/baw107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw107","pdf_url":null,"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":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":24,"referenced_works":["https://openalex.org/W1971937855","https://openalex.org/W2003846498","https://openalex.org/W2017586115","https://openalex.org/W2019058699","https://openalex.org/W2023472009","https://openalex.org/W2035806597","https://openalex.org/W2043116503","https://openalex.org/W2055043387","https://openalex.org/W2065589216","https://openalex.org/W2076243827","https://openalex.org/W2092020460","https://openalex.org/W2121703011","https://openalex.org/W2122245399","https://openalex.org/W2125512764","https://openalex.org/W2138098955","https://openalex.org/W2156622081","https://openalex.org/W2158148243","https://openalex.org/W2167155938","https://openalex.org/W2168670121","https://openalex.org/W2175948239","https://openalex.org/W2336973098","https://openalex.org/W3216020230","https://openalex.org/W4235874578","https://openalex.org/W4236236547"],"related_works":["https://openalex.org/W2730300917","https://openalex.org/W2905833392","https://openalex.org/W2033075120","https://openalex.org/W2189508481","https://openalex.org/W3138732900","https://openalex.org/W2158100429","https://openalex.org/W2076774832","https://openalex.org/W3157132971","https://openalex.org/W2972815725","https://openalex.org/W1974534862"],"abstract_inverted_index":{"Ricebase":[0,31,159],"(http://ricebase.org)":[1],"is":[2],"an":[3,12],"integrative":[4],"genomic":[5],"database":[6,131],"for":[7,180],"rice":[8,67,76,115,168],"(Oryza":[9],"sativa)":[10],"with":[11,132,148],"emphasis":[13],"on":[14],"combining":[15],"datasets":[16],"in":[17,85,128,144,185],"a":[18,93,101,129,133,141,145,177],"way":[19],"that":[20],"maintains":[21],"the":[22,64,74,86,113,151],"key":[23],"links":[24,149],"between":[25],"past":[26],"and":[27,41,54,121,137,153,170,183],"current":[28],"genetic":[29,161,181],"studies.":[30],"includes":[32],"DNA":[33],"sequence":[34,59],"data,":[35],"gene":[36],"annotations,":[37],"nucleotide":[38],"variation":[39],"data":[40],"molecular":[42],"marker":[43],"fragment":[44],"size":[45],"data.":[46],"Rice":[47],"research":[48,82],"has":[49],"benefited":[50],"from":[51],"early":[52],"adoption":[53],"extensive":[55],"use":[56],"of":[57,66,80,88,104,158],"simple":[58],"repeat":[60],"(SSR)":[61],"markers;":[62],"however,":[63],"majority":[65],"SSR":[68,110,119],"markers":[69,120],"were":[70],"developed":[71],"prior":[72],"to":[73,108],"latest":[75,114],"pseudomolecule":[77,116],"assembly.":[78,117],"Interpretation":[79],"new":[81,98],"using":[83,100],"SNPs":[84],"context":[87],"literature":[89],"citing":[90],"SSRs":[91],"requires":[92],"common":[94],"coordinate":[95],"system.":[96],"A":[97],"pipeline,":[99],"stepwise":[102],"relaxation":[103],"stringency,":[105],"was":[106],"used":[107],"map":[109],"primers":[111],"onto":[112],"The":[118,155],"experimentally":[122],"assayed":[123],"amplicon":[124],"sizes":[125],"are":[126,138],"presented":[127],"relational":[130],"web-based":[134],"front":[135],"end,":[136],"available":[139],"as":[140,176],"track":[142],"loaded":[143],"genome":[146,163],"browser":[147,152],"connecting":[150],"database.":[154],"combined":[156],"capabilities":[157],"link":[160],"markers,":[162],"context,":[164],"allele":[165],"states":[166],"across":[167],"germplasm":[169],"potentially":[171],"user":[172],"curated":[173],"phenotypic":[174],"interpretations":[175],"community":[178],"resource":[179],"discovery":[182],"breeding":[184],"rice.":[186]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
