{"id":"https://openalex.org/W2888863925","doi":"https://doi.org/10.12688/f1000research.15708.1","title":"Providing gene-to-variant and variant-to-gene database identifier mappings to use with BridgeDb mapping services.","display_name":"Providing gene-to-variant and variant-to-gene database identifier mappings to use with BridgeDb mapping services.","publication_year":2018,"publication_date":"2018-09-03","ids":{"openalex":"https://openalex.org/W2888863925","doi":"https://doi.org/10.12688/f1000research.15708.1","mag":"2888863925"},"language":"en","primary_location":{"id":"doi:10.12688/f1000research.15708.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.15708.1","pdf_url":"https://f1000research.com/articles/7-1390/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"type":"preprint","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://f1000research.com/articles/7-1390/v1/pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061353760","display_name":"Friederike Ehrhart","orcid":"https://orcid.org/0000-0002-7770-620X"},"institutions":[{"id":"https://openalex.org/I2800191616","display_name":"Maastricht University Medical Centre","ror":"https://ror.org/02d9ce178","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2800191616"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Friederike Ehrhart","raw_affiliation_strings":["Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]},{"raw_affiliation_string":"GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD","institution_ids":["https://openalex.org/I2800191616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040186093","display_name":"Jonathan M\u00e9lius","orcid":"https://orcid.org/0000-0001-8624-2972"},"institutions":[{"id":"https://openalex.org/I322491407","display_name":"Ac\u0131badem University","ror":"https://ror.org/01rp2a061","country_code":"TR","type":"education","lineage":["https://openalex.org/I322491407"]},{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL","TR"],"is_corresponding":false,"raw_author_name":"Jonathan Melius","raw_affiliation_strings":[". Acbadem University, Istanbul, Turkey","Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":". Acbadem University, Istanbul, Turkey","institution_ids":["https://openalex.org/I322491407"]},{"raw_affiliation_string":"Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","institution_ids":["https://openalex.org/I34352273"]},{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068612501","display_name":"Elisa Cirillo","orcid":"https://orcid.org/0000-0002-0241-7833"},"institutions":[{"id":"https://openalex.org/I322491407","display_name":"Ac\u0131badem University","ror":"https://ror.org/01rp2a061","country_code":"TR","type":"education","lineage":["https://openalex.org/I322491407"]},{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL","TR"],"is_corresponding":false,"raw_author_name":"Elisa Cirillo","raw_affiliation_strings":[". Acbadem University, Istanbul, Turkey","Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":". Acbadem University, Istanbul, Turkey","institution_ids":["https://openalex.org/I322491407"]},{"raw_affiliation_string":"Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","institution_ids":["https://openalex.org/I34352273"]},{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062841937","display_name":"Martina Kutmon","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Martina Kutmon","raw_affiliation_strings":["Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, 6200 MD","Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":"Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, 6200 MD","institution_ids":[]},{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060194743","display_name":"Egon Willighagen","orcid":"https://orcid.org/0000-0001-7542-0286"},"institutions":[{"id":"https://openalex.org/I322491407","display_name":"Ac\u0131badem University","ror":"https://ror.org/01rp2a061","country_code":"TR","type":"education","lineage":["https://openalex.org/I322491407"]},{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL","TR"],"is_corresponding":false,"raw_author_name":"Egon L. Willighagen","raw_affiliation_strings":[". Acbadem University, Istanbul, Turkey","Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":". Acbadem University, Istanbul, Turkey","institution_ids":["https://openalex.org/I322491407"]},{"raw_affiliation_string":"Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","institution_ids":["https://openalex.org/I34352273"]},{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088503440","display_name":"Susan L. Coort","orcid":"https://orcid.org/0000-0003-1224-9690"},"institutions":[{"id":"https://openalex.org/I322491407","display_name":"Ac\u0131badem University","ror":"https://ror.org/01rp2a061","country_code":"TR","type":"education","lineage":["https://openalex.org/I322491407"]},{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL","TR"],"is_corresponding":false,"raw_author_name":"Susan L. Coort","raw_affiliation_strings":[". Acbadem University, Istanbul, Turkey","Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":". Acbadem University, Istanbul, Turkey","institution_ids":["https://openalex.org/I322491407"]},{"raw_affiliation_string":"Department of Bioinformatics -BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands","institution_ids":["https://openalex.org/I34352273"]},{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041308148","display_name":"Leopold Curfs","orcid":"https://orcid.org/0000-0001-9154-1395"},"institutions":[{"id":"https://openalex.org/I2800191616","display_name":"Maastricht University Medical Centre","ror":"https://ror.org/02d9ce178","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2800191616"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Leopold M.G. Curfs","raw_affiliation_strings":["GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD, The Netherlands","GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":"GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD, The Netherlands","institution_ids":["https://openalex.org/I2800191616"]},{"raw_affiliation_string":"GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD","institution_ids":["https://openalex.org/I2800191616"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075750072","display_name":"Chris T. Evelo","orcid":"https://orcid.org/0000-0002-5301-3142"},"institutions":[{"id":"https://openalex.org/I2800191616","display_name":"Maastricht University Medical Centre","ror":"https://ror.org/02d9ce178","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2800191616"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Chris T. Evelo","raw_affiliation_strings":["Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD","Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, 6200 MD"],"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD","institution_ids":[]},{"raw_affiliation_string":"GKC-Rett Expertise Centre, Maastricht University Medical Center, Maastricht, 6200 MD","institution_ids":["https://openalex.org/I2800191616"]},{"raw_affiliation_string":"Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, 6200 MD","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5061353760"],"corresponding_institution_ids":["https://openalex.org/I2800191616"],"apc_list":{"value":1350,"currency":"USD","value_usd":1350},"apc_paid":{"value":1350,"currency":"USD","value_usd":1350},"fwci":0.0928,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.48271559,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"7","issue":null,"first_page":"1390","last_page":"1390"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9970999956130981,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9970999956130981,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965999722480774,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9926999807357788,"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/ensembl","display_name":"Ensembl","score":0.8835879564285278},{"id":"https://openalex.org/keywords/identifier","display_name":"Identifier","score":0.8513472676277161},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.6712779998779297},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5002779960632324},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4938560128211975},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.446689635515213},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3955664038658142},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28435298800468445},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.2677417993545532},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2105950117111206},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.1874871850013733},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.11928153038024902},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.0757608711719513}],"concepts":[{"id":"https://openalex.org/C141674004","wikidata":"https://www.wikidata.org/wiki/Q1344256","display_name":"Ensembl","level":5,"score":0.8835879564285278},{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.8513472676277161},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.6712779998779297},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5002779960632324},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4938560128211975},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.446689635515213},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3955664038658142},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28435298800468445},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.2677417993545532},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2105950117111206},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.1874871850013733},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.11928153038024902},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0757608711719513}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.12688/f1000research.15708.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.15708.1","pdf_url":"https://f1000research.com/articles/7-1390/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.12688/f1000research.15708.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.15708.1","pdf_url":"https://f1000research.com/articles/7-1390/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2888863925.pdf","grobid_xml":"https://content.openalex.org/works/W2888863925.grobid-xml"},"referenced_works_count":19,"referenced_works":["https://openalex.org/W1483236517","https://openalex.org/W1528439060","https://openalex.org/W1779441601","https://openalex.org/W1999758530","https://openalex.org/W2014850372","https://openalex.org/W2063028213","https://openalex.org/W2093987394","https://openalex.org/W2116238734","https://openalex.org/W2120680184","https://openalex.org/W2128763542","https://openalex.org/W2140611297","https://openalex.org/W2159675211","https://openalex.org/W2347037915","https://openalex.org/W2543238710","https://openalex.org/W2582743722","https://openalex.org/W2767914218","https://openalex.org/W3209639750","https://openalex.org/W4210659358","https://openalex.org/W6963185129"],"related_works":["https://openalex.org/W2156564520","https://openalex.org/W4307843054","https://openalex.org/W2104570606","https://openalex.org/W4210430020","https://openalex.org/W4250611210","https://openalex.org/W4248160505","https://openalex.org/W2116726748","https://openalex.org/W2171257316","https://openalex.org/W2951946877","https://openalex.org/W2153768468"],"abstract_inverted_index":{"<ns7:p>":[0],"Database":[1],"identifier":[2],"mapping":[3,18,64,103,124,134],"services":[4],"are":[5,53,105,116],"important":[6],"to":[7,130],"make":[8],"database":[9,125],"information":[10],"interoperable.":[11],"BridgeDb":[12,20,63,133],"offers":[13],"such":[14,48],"a":[15,96],"service.":[16],"Available":[17],"for":[19,38,66],"link":[21],"1.":[22],"genes":[23],"and":[24,31,35,41,95,115,127],"gene":[25],"products":[26],"identifiers,":[27],"2.":[28],"metabolite":[29],"identifiers":[30,37],"InChI":[32],"structure":[33],"description,":[34],"3.":[36],"biochemical":[39],"reactions":[40],"interactions":[42],"between":[43],"multiple":[44,56],"resources":[45],"that":[46],"use":[47,83],"IDs":[49],"while":[50],"the":[51,74,82,109,119,131],"mappings":[52,86],"obtained":[54],"from":[55,118],"sources.":[57],"In":[58],"this":[59],"study":[60],"we":[61,80],"created":[62],"databases":[65,104],"selections":[67],"of":[68,84],"genes-to-variants":[69],"(and":[70],"variants-to-genes)":[71],"based":[72],"on":[73,108],"variants":[75],"described":[76,107],"in":[77,87],"Ensembl.":[78],"Moreover,":[79],"demonstrated":[81],"these":[85],"different":[88],"software":[89],"tools":[90],"like":[91],"R,":[92],"PathVisio,":[93],"Cytoscape":[94],"local":[97],"installation":[98],"using":[99],"Docker.":[100],"The":[101],"variant":[102],"now":[106],"<ns7:ext-link":[110,120],"xmlns:ns6=\"http://www.w3.org/1999/xlink\"":[111,121],"ext-link-type=\"uri\"":[112,122],"ns6:href=\"https://www.bridgedb.org/mapping-databases/gene-variant-mappings/\">BridgeDb":[113],"website</ns7:ext-link>":[114],"available":[117],"ns6:href=\"http://bridgedb.org/data/gene_database/\">BridgeDb":[123],"repository</ns7:ext-link>":[126],"updated":[128],"according":[129],"regular":[132],"update":[135],"schedule.":[136],"</ns7:p>":[137]},"counts_by_year":[{"year":2019,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
