{"id":"https://openalex.org/W4226389399","doi":"https://doi.org/10.1093/nar/gkac306","title":"The mitoXplorer 2.0 update: integrating and interpreting mitochondrial expression dynamics within a cellular context","display_name":"The mitoXplorer 2.0 update: integrating and interpreting mitochondrial expression dynamics within a cellular context","publication_year":2022,"publication_date":"2022-04-15","ids":{"openalex":"https://openalex.org/W4226389399","doi":"https://doi.org/10.1093/nar/gkac306","pmid":"https://pubmed.ncbi.nlm.nih.gov/35524562"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkac306","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkac306","pdf_url":"https://academic.oup.com/nar/article-pdf/50/W1/W490/44376618/gkac306.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","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/nar/article-pdf/50/W1/W490/44376618/gkac306.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048682143","display_name":"Fabio Marchian\u00f2","orcid":"https://orcid.org/0000-0001-5287-412X"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I21491767","display_name":"Aix-Marseille Universit\u00e9","ror":"https://ror.org/035xkbk20","country_code":"FR","type":"education","lineage":["https://openalex.org/I21491767"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Fabio Marchiano","raw_affiliation_strings":["Aix-Marseille University , CNRS, IBDM UMR 7288, 13009 Marseille , France"],"affiliations":[{"raw_affiliation_string":"Aix-Marseille University , CNRS, IBDM UMR 7288, 13009 Marseille , France","institution_ids":["https://openalex.org/I21491767","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047825664","display_name":"Margaux Haering","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I21491767","display_name":"Aix-Marseille Universit\u00e9","ror":"https://ror.org/035xkbk20","country_code":"FR","type":"education","lineage":["https://openalex.org/I21491767"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Margaux Haering","raw_affiliation_strings":["Aix-Marseille University , CNRS, IBDM UMR 7288, 13009 Marseille , France"],"affiliations":[{"raw_affiliation_string":"Aix-Marseille University , CNRS, IBDM UMR 7288, 13009 Marseille , France","institution_ids":["https://openalex.org/I21491767","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026672805","display_name":"Bianca Habermann","orcid":"https://orcid.org/0000-0002-2457-7504"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I21491767","display_name":"Aix-Marseille Universit\u00e9","ror":"https://ror.org/035xkbk20","country_code":"FR","type":"education","lineage":["https://openalex.org/I21491767"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Bianca Hermine Habermann","raw_affiliation_strings":["Aix-Marseille University , CNRS, IBDM UMR 7288, 13009 Marseille , France"],"affiliations":[{"raw_affiliation_string":"Aix-Marseille University , CNRS, IBDM UMR 7288, 13009 Marseille , France","institution_ids":["https://openalex.org/I21491767","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5026672805"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I21491767"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3264,"currency":"EUR","value_usd":3520},"fwci":2.6865,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.91115831,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"50","issue":"W1","first_page":"W490","last_page":"W499"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10301","display_name":"Mitochondrial Function and Pathology","score":0.9991999864578247,"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/T10301","display_name":"Mitochondrial Function and Pathology","score":0.9991999864578247,"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":0.9976999759674072,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9962999820709229,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.93207186460495},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6755679845809937},{"id":"https://openalex.org/keywords/dynamics","display_name":"Dynamics (music)","score":0.5157849788665771},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.48862653970718384},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45891034603118896},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.3823808431625366},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3743992745876312},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.3474592864513397}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.93207186460495},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6755679845809937},{"id":"https://openalex.org/C145912823","wikidata":"https://www.wikidata.org/wiki/Q113558","display_name":"Dynamics (music)","level":2,"score":0.5157849788665771},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.48862653970718384},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45891034603118896},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.3823808431625366},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3743992745876312},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.3474592864513397},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","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},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D005057","descriptor_name":"Eukaryotic Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005057","descriptor_name":"Eukaryotic Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005057","descriptor_name":"Eukaryotic Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008928","descriptor_name":"Mitochondria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008928","descriptor_name":"Mitochondria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008928","descriptor_name":"Mitochondria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008928","descriptor_name":"Mitochondria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D008928","descriptor_name":"Mitochondria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D008928","descriptor_name":"Mitochondria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","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":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkac306","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkac306","pdf_url":"https://academic.oup.com/nar/article-pdf/50/W1/W490/44376618/gkac306.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:35524562","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35524562","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9252804","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9252804","pdf_url":null,"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:oai:HAL:hal-03769539v1","is_oa":true,"landing_page_url":"https://hal.science/hal-03769539","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Research, 2022, 50 (W1), pp.W490-W499. &#x27E8;10.1093/nar/gkac306&#x27E9;","raw_type":"Journal articles"}],"best_oa_location":{"id":"doi:10.1093/nar/gkac306","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkac306","pdf_url":"https://academic.oup.com/nar/article-pdf/50/W1/W490/44376618/gkac306.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.41999998688697815,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G1174950215","display_name":null,"funder_award_id":"MND202003011460","funder_id":"https://openalex.org/F4320321589","funder_display_name":"Fondation pour la Recherche M\u00e9dicale"},{"id":"https://openalex.org/G1231071944","display_name":null,"funder_award_id":"ANR-18-CE45-0016-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G2106630797","display_name":null,"funder_award_id":"ANR-18-CE45-0016","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6876561401","display_name":null,"funder_award_id":"ANR-18","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320309911","display_name":"Aix-Marseille Universit\u00e9","ror":"https://ror.org/035xkbk20"},{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320321589","display_name":"Fondation pour la Recherche M\u00e9dicale","ror":"https://ror.org/04w6kn183"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4226389399.pdf","grobid_xml":"https://content.openalex.org/works/W4226389399.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W1579000626","https://openalex.org/W1902011343","https://openalex.org/W1982910974","https://openalex.org/W1990171977","https://openalex.org/W2005921091","https://openalex.org/W2008281981","https://openalex.org/W2045949302","https://openalex.org/W2054822023","https://openalex.org/W2068845666","https://openalex.org/W2070053976","https://openalex.org/W2103882919","https://openalex.org/W2107538221","https://openalex.org/W2130410032","https://openalex.org/W2130850760","https://openalex.org/W2132022337","https://openalex.org/W2135415614","https://openalex.org/W2138207763","https://openalex.org/W2155418475","https://openalex.org/W2169456326","https://openalex.org/W2171386471","https://openalex.org/W2179438025","https://openalex.org/W2255469197","https://openalex.org/W2259938310","https://openalex.org/W2341128841","https://openalex.org/W2345356016","https://openalex.org/W2424521488","https://openalex.org/W2777064170","https://openalex.org/W2805464558","https://openalex.org/W2903463122","https://openalex.org/W2944226869","https://openalex.org/W2949726389","https://openalex.org/W2985598423","https://openalex.org/W2992319593","https://openalex.org/W3106539179","https://openalex.org/W3107527779","https://openalex.org/W3112727122","https://openalex.org/W3146153743","https://openalex.org/W3183929623","https://openalex.org/W3193861087","https://openalex.org/W3205393340","https://openalex.org/W4229948506"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2392243736","https://openalex.org/W86652014","https://openalex.org/W2328518092","https://openalex.org/W3101249758","https://openalex.org/W2382079200","https://openalex.org/W3129895999","https://openalex.org/W2374091470","https://openalex.org/W4388218547","https://openalex.org/W2379703849"],"abstract_inverted_index":{"Mitochondria":[0],"are":[1,24],"subcellular":[2],"organelles":[3],"present":[4],"in":[5,15,29,68,177],"almost":[6],"all":[7],"eukaryotic":[8],"cells,":[9],"which":[10],"play":[11],"a":[12,27,149],"central":[13],"role":[14],"cellular":[16,70,81],"metabolism.":[17],"Different":[18],"tissues,":[19],"health":[20],"and":[21,32,72,108,162],"age":[22],"conditions":[23],"characterized":[25],"by":[26],"difference":[28],"mitochondrial":[30,52,121,147],"structure":[31],"composition.":[33],"The":[34],"visual":[35],"data":[36,139,168],"mining":[37],"platform":[38,91,134],"mitoXplorer":[39,90,182],"1.0":[40],"was":[41],"developed":[42],"to":[43,80,92,112,131,135,151,157,165],"explore":[44,152],"the":[45,69,89,133,155,172],"expression":[46],"dynamics":[47],"of":[48,120,174],"genes":[49],"associated":[50],"with":[51],"functions":[53,63,130,176],"that":[54,76],"could":[55],"help":[56,77,114,166],"explain":[57],"these":[58,175],"differences.":[59],"It,":[60],"however,":[61],"lacked":[62],"aimed":[64],"at":[65,189],"integrating":[66],"mitochondria":[67,78],"context":[71],"thus":[73],"identifying":[74],"regulators":[75,119],"adapt":[79],"needs.":[82],"To":[83],"fill":[84],"this":[85,98],"gap,":[86],"we":[87,100,125],"upgraded":[88],"version":[93],"2.0":[94,183],"(mitoXplorer":[95],"2.0).":[96],"In":[97,123],"upgrade,":[99],"implemented":[101,126],"two":[102],"novel":[103,129],"integrative":[104],"functions,":[105],"network":[106],"analysis":[107],"transcription":[109],"factor":[110],"enrichment,":[111],"specifically":[113],"identify":[115],"signalling":[116],"or":[117],"transcriptional":[118],"processes.":[122],"addition,":[124],"several":[127],"other":[128],"allow":[132],"go":[136],"beyond":[137],"simple":[138],"visualization,":[140],"such":[141],"as":[142],"an":[143,163],"enrichment":[144],"function":[145,150],"for":[146],"processes,":[148],"time-series":[153],"data,":[154],"possibility":[156],"compare":[158],"datasets":[159],"across":[160],"species":[161],"IDconverter":[164],"facilitate":[167],"upload.":[169],"We":[170],"demonstrate":[171],"usefulness":[173],"three":[178],"specific":[179],"use":[180],"cases.":[181],"is":[184],"freely":[185],"available":[186],"without":[187],"login":[188],"http://mitoxplorer2.ibdm.univ-mrs.fr.":[190]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":8}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
