{"id":"https://openalex.org/W4400932604","doi":"https://doi.org/10.1093/bib/bbae347","title":"MetalinksDB: a flexible and contextualizable resource of metabolite-protein interactions","display_name":"MetalinksDB: a flexible and contextualizable resource of metabolite-protein interactions","publication_year":2024,"publication_date":"2024-05-23","ids":{"openalex":"https://openalex.org/W4400932604","doi":"https://doi.org/10.1093/bib/bbae347","pmid":"https://pubmed.ncbi.nlm.nih.gov/39038934"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae347","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae347","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae347/58609706/bbae347.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","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":"Briefings in Bioinformatics","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/bib/article-pdf/25/4/bbae347/58609706/bbae347.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069139627","display_name":"Elias Farr","orcid":"https://orcid.org/0000-0002-4441-6513"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]},{"id":"https://openalex.org/I2802476451","display_name":"Wellcome Sanger Institute","ror":"https://ror.org/05cy4wa09","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I2802476451","https://openalex.org/I87048295"]}],"countries":["DE","GB"],"is_corresponding":true,"raw_author_name":"Elias Farr","raw_affiliation_strings":["Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","Wellcome Sanger Institute, Wellcome Genome Campus , Cambridge CB10 1SA , United Kingdom"],"affiliations":[{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]},{"raw_affiliation_string":"Wellcome Sanger Institute, Wellcome Genome Campus , Cambridge CB10 1SA , United Kingdom","institution_ids":["https://openalex.org/I2802476451"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084832725","display_name":"Daniel Dimitrov","orcid":"https://orcid.org/0000-0002-5197-2112"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Daniel Dimitrov","raw_affiliation_strings":["Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany"],"affiliations":[{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058826920","display_name":"Christina Schmidt","orcid":"https://orcid.org/0000-0002-3867-0881"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Christina Schmidt","raw_affiliation_strings":["Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany"],"affiliations":[{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028302173","display_name":"D\u00e9nes T\u00fcrei","orcid":"https://orcid.org/0000-0002-7249-9379"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Denes Turei","raw_affiliation_strings":["Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany"],"affiliations":[{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021965999","display_name":"Sebastian Lobentanzer","orcid":"https://orcid.org/0000-0003-3399-6695"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sebastian Lobentanzer","raw_affiliation_strings":["Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany"],"affiliations":[{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019269764","display_name":"Aur\u00e9lien Dugourd","orcid":"https://orcid.org/0000-0002-0714-028X"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Aurelien Dugourd","raw_affiliation_strings":["EMBL European Bioinformatics Institute, Wellcome Genome Campus , Cambridge CB10 1SA , United Kingdom","Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany"],"affiliations":[{"raw_affiliation_string":"EMBL European Bioinformatics Institute, Wellcome Genome Campus , Cambridge CB10 1SA , United Kingdom","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005499510","display_name":"Julio S\u00e1ez-Rodr\u00edguez","orcid":"https://orcid.org/0000-0002-8552-8976"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Julio Saez-Rodriguez","raw_affiliation_strings":["EMBL European Bioinformatics Institute, Wellcome Genome Campus , Cambridge CB10 1SA , United Kingdom","Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany"],"affiliations":[{"raw_affiliation_string":"EMBL European Bioinformatics Institute, Wellcome Genome Campus , Cambridge CB10 1SA , United Kingdom","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine , Im Neuenheimer Feld 130.3, 69120, Heidelberg , Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5069139627"],"corresponding_institution_ids":["https://openalex.org/I223822909","https://openalex.org/I2802164966","https://openalex.org/I2802476451"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":4.3339,"has_fulltext":true,"cited_by_count":19,"citation_normalized_percentile":{"value":0.95251597,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"25","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9991000294685364,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9991000294685364,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9958000183105469,"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/T10375","display_name":"Pharmacogenetics and Drug Metabolism","score":0.9872999787330627,"subfield":{"id":"https://openalex.org/subfields/3004","display_name":"Pharmacology"},"field":{"id":"https://openalex.org/fields/30","display_name":"Pharmacology, Toxicology and Pharmaceutics"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/metabolite","display_name":"Metabolite","score":0.7938961982727051},{"id":"https://openalex.org/keywords/cell-signaling","display_name":"Cell signaling","score":0.566491425037384},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4911067485809326},{"id":"https://openalex.org/keywords/signal-transduction","display_name":"Signal transduction","score":0.48588651418685913},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.4762694537639618},{"id":"https://openalex.org/keywords/intracellular","display_name":"Intracellular","score":0.46942785382270813},{"id":"https://openalex.org/keywords/receptor","display_name":"Receptor","score":0.4269372224807739},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4198419153690338},{"id":"https://openalex.org/keywords/metabolomics","display_name":"Metabolomics","score":0.4109261929988861},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.369281530380249},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2373603880405426},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.18420666456222534},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.06140676140785217},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.0604555606842041}],"concepts":[{"id":"https://openalex.org/C2777477808","wikidata":"https://www.wikidata.org/wiki/Q407595","display_name":"Metabolite","level":2,"score":0.7938961982727051},{"id":"https://openalex.org/C150555746","wikidata":"https://www.wikidata.org/wiki/Q210973","display_name":"Cell signaling","level":3,"score":0.566491425037384},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4911067485809326},{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.48588651418685913},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.4762694537639618},{"id":"https://openalex.org/C79879829","wikidata":"https://www.wikidata.org/wiki/Q5571762","display_name":"Intracellular","level":2,"score":0.46942785382270813},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.4269372224807739},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4198419153690338},{"id":"https://openalex.org/C21565614","wikidata":"https://www.wikidata.org/wiki/Q12149006","display_name":"Metabolomics","level":2,"score":0.4109261929988861},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.369281530380249},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2373603880405426},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.18420666456222534},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.06140676140785217},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0604555606842041}],"mesh":[{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D058186","descriptor_name":"Acute Kidney Injury","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbae347","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae347","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae347/58609706/bbae347.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39038934","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39038934","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11262834","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11262834","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11262834/pdf/bbae347.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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae347","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae347","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae347/58609706/bbae347.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6200000047683716,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G132278938","display_name":null,"funder_award_id":"DECIDE","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G2021936805","display_name":null,"funder_award_id":"031L0181B","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G2140036619","display_name":null,"funder_award_id":"CoreSys","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G2689612763","display_name":null,"funder_award_id":"Marie","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3514550006","display_name":null,"funder_award_id":"Centre","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G352791218","display_name":null,"funder_award_id":"(BMBF)","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G5159472240","display_name":null,"funder_award_id":"860329","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5533135699","display_name":null,"funder_award_id":"SMART","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G6427069539","display_name":null,"funder_award_id":"031L0212A","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G8000286611","display_name":null,"funder_award_id":"965193","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G8318064016","display_name":null,"funder_award_id":"Horizon","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G8697265622","display_name":"HPC/Exascale Centre of Excellence in Personalised Medicine - PerMedCoE","funder_award_id":"951773","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320881","display_name":"Universit\u00e4t Heidelberg","ror":"https://ror.org/038t36y30"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4400932604.pdf"},"referenced_works_count":77,"referenced_works":["https://openalex.org/W1964736484","https://openalex.org/W1991433173","https://openalex.org/W2010457001","https://openalex.org/W2021793290","https://openalex.org/W2035733956","https://openalex.org/W2051613372","https://openalex.org/W2096663326","https://openalex.org/W2105738527","https://openalex.org/W2135087274","https://openalex.org/W2146512944","https://openalex.org/W2147100699","https://openalex.org/W2227999806","https://openalex.org/W2234445408","https://openalex.org/W2281238215","https://openalex.org/W2283191725","https://openalex.org/W2294516783","https://openalex.org/W2535958113","https://openalex.org/W2557833792","https://openalex.org/W2559588208","https://openalex.org/W2596441513","https://openalex.org/W2604209550","https://openalex.org/W2739510344","https://openalex.org/W2782205417","https://openalex.org/W2789128799","https://openalex.org/W2800392236","https://openalex.org/W2896863696","https://openalex.org/W2906401896","https://openalex.org/W2907470641","https://openalex.org/W2920146178","https://openalex.org/W2952015518","https://openalex.org/W2974116871","https://openalex.org/W3007935255","https://openalex.org/W3013554928","https://openalex.org/W3036487861","https://openalex.org/W3041158157","https://openalex.org/W3099810371","https://openalex.org/W3113306941","https://openalex.org/W3123592252","https://openalex.org/W3124569282","https://openalex.org/W3126698360","https://openalex.org/W3130232612","https://openalex.org/W3132661792","https://openalex.org/W3138055079","https://openalex.org/W3163290491","https://openalex.org/W3174064560","https://openalex.org/W3184580818","https://openalex.org/W3209896479","https://openalex.org/W3211402536","https://openalex.org/W3211718555","https://openalex.org/W3215305793","https://openalex.org/W3216460995","https://openalex.org/W4206447491","https://openalex.org/W4210941951","https://openalex.org/W4214876469","https://openalex.org/W4221006445","https://openalex.org/W4225972028","https://openalex.org/W4281716326","https://openalex.org/W4284885575","https://openalex.org/W4288045534","https://openalex.org/W4315703437","https://openalex.org/W4317105289","https://openalex.org/W4318981406","https://openalex.org/W4322720350","https://openalex.org/W4323812845","https://openalex.org/W4367835376","https://openalex.org/W4381158347","https://openalex.org/W4381190112","https://openalex.org/W4386023701","https://openalex.org/W4386415960","https://openalex.org/W4388555619","https://openalex.org/W4390974497","https://openalex.org/W6695589387","https://openalex.org/W6757973017","https://openalex.org/W6849058426","https://openalex.org/W6849748000","https://openalex.org/W6853343068","https://openalex.org/W6855080736"],"related_works":["https://openalex.org/W2521903434","https://openalex.org/W1753739957","https://openalex.org/W2085913165","https://openalex.org/W2011282322","https://openalex.org/W2024044986","https://openalex.org/W3084209502","https://openalex.org/W1988419672","https://openalex.org/W962094472","https://openalex.org/W1970271735","https://openalex.org/W3212781612"],"abstract_inverted_index":{"From":[0],"the":[1,30,65,186],"catalytic":[2],"breakdown":[3],"of":[4,42,68,96,154,188],"nutrients":[5],"to":[6,37,64,81,89,107,179],"signaling,":[7],"interactions":[8,48],"between":[9],"metabolites":[10],"and":[11,103,151,164],"proteins":[12],"play":[13],"an":[14,94],"essential":[15],"role":[16],"in":[17,122,126,139],"cellular":[18],"function.":[19],"An":[20],"important":[21],"case":[22],"is":[23,93,148],"cell-cell":[24,46],"communication,":[25],"where":[26],"metabolites,":[27],"secreted":[28],"into":[29],"microenvironment,":[31],"initiate":[32],"signaling":[33,59,138,192],"cascades":[34],"by":[35,174],"binding":[36],"intra-":[38],"or":[39,115],"extracellular":[40],"receptors":[41],"neighboring":[43],"cells.":[44],"Protein-protein":[45],"communication":[47],"are":[49],"routinely":[50],"predicted":[51],"from":[52],"transcriptomic":[53],"data.":[54,132,146],"However,":[55],"inferring":[56],"metabolite-mediated":[57,190],"intercellular":[58,69,137,155,191],"remains":[60],"challenging,":[61],"partially":[62],"due":[63],"limited":[66],"size":[67],"prior":[70],"knowledge":[71,168],"resources":[72,88,102],"focused":[73],"on":[74],"metabolites.":[75],"Here,":[76],"we":[77,134],"leverage":[78],"knowledge-graph":[79],"infrastructure":[80],"integrate":[82],"generalistic":[83],"metabolite-protein":[84,156],"with":[85],"curated":[86],"metabolite-receptor":[87,101],"create":[90],"MetalinksDB.":[91],"MetalinksDB":[92,147,183],"order":[95],"magnitude":[97],"larger":[98],"than":[99],"existing":[100],"can":[104],"be":[105],"tailored":[106,178],"specific":[108,180],"biological":[109,181],"contexts,":[110,182],"such":[111],"as":[112,166],"diseases,":[113],"pathways,":[114],"tissue/cellular":[116],"locations.":[117],"We":[118,171],"demonstrate":[119],"MetalinksDB's":[120],"utility":[121],"identifying":[123],"deregulated":[124],"processes":[125],"renal":[127],"cancer":[128],"using":[129,143],"multi-omics":[130],"bulk":[131],"Furthermore,":[133],"infer":[135],"metabolite-driven":[136],"acute":[140],"kidney":[141],"injury":[142],"spatial":[144],"transcriptomics":[145],"a":[149,160,167],"comprehensive":[150],"customizable":[152],"database":[153],"interactions,":[157],"accessible":[158],"via":[159],"web":[161],"interface":[162],"(https://metalinks.omnipathdb.org/)":[163],"programmatically":[165],"graph":[169],"(https://github.com/biocypher/metalinks).":[170],"anticipate":[172],"that":[173],"enabling":[175],"diverse":[176],"analyses":[177],"will":[184],"facilitate":[185],"discovery":[187],"disease-relevant":[189],"processes.":[193]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":2}],"updated_date":"2026-04-13T07:58:08.660418","created_date":"2025-10-10T00:00:00"}