{"id":"https://openalex.org/W4385683458","doi":"https://doi.org/10.1093/database/baad058","title":"TRGdb: a universal resource for\u00a0the exploration of\u00a0taxonomically restricted genes in\u00a0bacteria","display_name":"TRGdb: a universal resource for\u00a0the exploration of\u00a0taxonomically restricted genes in\u00a0bacteria","publication_year":2023,"publication_date":"2023-01-01","ids":{"openalex":"https://openalex.org/W4385683458","doi":"https://doi.org/10.1093/database/baad058","pmid":"https://pubmed.ncbi.nlm.nih.gov/37555549"},"language":"en","primary_location":{"id":"doi:10.1093/database/baad058","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baad058","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad058/51075150/baad058.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/baad058/51075150/baad058.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5052786144","display_name":"Andrzej Zielezi\u0144ski","orcid":"https://orcid.org/0000-0002-8096-3776"},"institutions":[{"id":"https://openalex.org/I59411706","display_name":"Adam Mickiewicz University in Pozna\u0144","ror":"https://ror.org/04g6bbq64","country_code":"PL","type":"education","lineage":["https://openalex.org/I59411706"]}],"countries":["PL"],"is_corresponding":true,"raw_author_name":"Andrzej Zielezinski","raw_affiliation_strings":["Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University , Uniwersytetu Poznanskiego 6, Poznan 61-614, Poland"],"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University , Uniwersytetu Poznanskiego 6, Poznan 61-614, Poland","institution_ids":["https://openalex.org/I59411706"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011185417","display_name":"Wojciech Dobrychlop","orcid":null},"institutions":[{"id":"https://openalex.org/I59411706","display_name":"Adam Mickiewicz University in Pozna\u0144","ror":"https://ror.org/04g6bbq64","country_code":"PL","type":"education","lineage":["https://openalex.org/I59411706"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Wojciech Dobrychlop","raw_affiliation_strings":["Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University , Uniwersytetu Poznanskiego 6, Poznan 61-614, Poland"],"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University , Uniwersytetu Poznanskiego 6, Poznan 61-614, Poland","institution_ids":["https://openalex.org/I59411706"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048575461","display_name":"Wojciech M. Kar\u0142owski","orcid":"https://orcid.org/0000-0002-8086-5404"},"institutions":[{"id":"https://openalex.org/I59411706","display_name":"Adam Mickiewicz University in Pozna\u0144","ror":"https://ror.org/04g6bbq64","country_code":"PL","type":"education","lineage":["https://openalex.org/I59411706"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Wojciech M Karlowski","raw_affiliation_strings":["Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University , Uniwersytetu Poznanskiego 6, Poznan 61-614, Poland"],"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University , Uniwersytetu Poznanskiego 6, Poznan 61-614, Poland","institution_ids":["https://openalex.org/I59411706"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5052786144"],"corresponding_institution_ids":["https://openalex.org/I59411706"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.1592,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.58837683,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"2023","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":0.9998000264167786,"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":0.9998000264167786,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9932000041007996,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.9506999850273132,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5833628177642822},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5587725639343262},{"id":"https://openalex.org/keywords/taxonomy","display_name":"Taxonomy (biology)","score":0.5546275973320007},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.48313233256340027},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.46004700660705566},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4446151852607727},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4415476620197296},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.41544973850250244},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4063990116119385},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3927004635334015},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3752279281616211},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19259393215179443},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.1508055031299591},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.08673349022865295}],"concepts":[{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5833628177642822},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5587725639343262},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.5546275973320007},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.48313233256340027},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.46004700660705566},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4446151852607727},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4415476620197296},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.41544973850250244},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4063990116119385},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3927004635334015},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3752279281616211},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19259393215179443},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.1508055031299591},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.08673349022865295},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000079803","descriptor_name":"Data Management","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000079803","descriptor_name":"Data Management","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000079803","descriptor_name":"Data Management","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":"D016208","descriptor_name":"Databases, Factual","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":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/baad058","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baad058","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad058/51075150/baad058.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:37555549","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37555549","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:10410690","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10410690","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10410690/pdf/baad058.pdf","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/baad058","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baad058","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad058/51075150/baad058.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":[{"display_name":"Responsible consumption and production","score":0.4099999964237213,"id":"https://metadata.un.org/sdg/12"}],"awards":[{"id":"https://openalex.org/G5360989107","display_name":null,"funder_award_id":"2017/25/B/NZ2/00187","funder_id":"https://openalex.org/F4320322511","funder_display_name":"Narodowe Centrum Nauki"}],"funders":[{"id":"https://openalex.org/F4320322511","display_name":"Narodowe Centrum Nauki","ror":"https://ror.org/03ha2q922"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4385683458.pdf"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W877002346","https://openalex.org/W1949578167","https://openalex.org/W1974383394","https://openalex.org/W1985501352","https://openalex.org/W1995807861","https://openalex.org/W2027839322","https://openalex.org/W2035571812","https://openalex.org/W2050195355","https://openalex.org/W2055777573","https://openalex.org/W2056200352","https://openalex.org/W2057844822","https://openalex.org/W2104399271","https://openalex.org/W2108035844","https://openalex.org/W2121367329","https://openalex.org/W2142678478","https://openalex.org/W2146729343","https://openalex.org/W2147619435","https://openalex.org/W2149876610","https://openalex.org/W2157892255","https://openalex.org/W2160582562","https://openalex.org/W2162888916","https://openalex.org/W2169748335","https://openalex.org/W2564511910","https://openalex.org/W2729672706","https://openalex.org/W2769473564","https://openalex.org/W2806884808","https://openalex.org/W2950954328","https://openalex.org/W3003257820","https://openalex.org/W3023967841","https://openalex.org/W3037321979","https://openalex.org/W3095583226","https://openalex.org/W3103145119","https://openalex.org/W3143063265","https://openalex.org/W3196134494","https://openalex.org/W3200103613","https://openalex.org/W4235069169","https://openalex.org/W4239871258","https://openalex.org/W4242703775","https://openalex.org/W4320855217"],"related_works":["https://openalex.org/W2050457088","https://openalex.org/W2354441856","https://openalex.org/W4327971719","https://openalex.org/W307290524","https://openalex.org/W2802106743","https://openalex.org/W2366985903","https://openalex.org/W2377397314","https://openalex.org/W2991103221","https://openalex.org/W2947475210","https://openalex.org/W2357913628"],"abstract_inverted_index":{"The":[0,37,52],"TRGdb":[1,72],"database":[2],"is":[3,73],"a":[4,16,74,79],"resource":[5,76],"dedicated":[6],"to":[7,24,30,70],"taxonomically":[8],"restricted":[9],"genes":[10,20],"(TRGs)":[11],"in":[12],"bacteria.":[13],"It":[14],"provides":[15,55],"comprehensive":[17],"collection":[18],"of":[19,34,65,82,89],"that":[21],"are":[22],"specific":[23],"different":[25],"genera":[26],"and":[27,44,68,87],"species,":[28],"according":[29],"the":[31,83],"latest":[32],"release":[33],"bacterial":[35,90],"taxonomy.":[36],"user":[38],"interface":[39],"allows":[40],"for":[41,77],"easy":[42],"browsing":[43],"searching":[45],"as":[46,48],"well":[47],"sequence":[49],"similarity":[50],"exploration.":[51],"website":[53],"also":[54],"information":[56],"on":[57],"each":[58],"TRG":[59],"protein":[60],"sequence,":[61],"including":[62],"its":[63],"level":[64],"disorder,":[66],"complexity":[67],"tendency":[69],"aggregate.":[71],"valuable":[75],"gaining":[78],"deeper":[80],"understanding":[81],"TRG-associated,":[84],"unique":[85],"features,":[86],"characteristics":[88],"organisms.":[91],"Database":[92],"URL":[93],"www.combio.pl/trgdb.":[94]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2025-12-21T01:58:51.020947","created_date":"2025-10-10T00:00:00"}
