{"id":"https://openalex.org/W4386774951","doi":"https://doi.org/10.1186/s12859-023-05416-8","title":"MAVEN: compound mechanism of action analysis and visualisation using transcriptomics and compound structure data in R/Shiny","display_name":"MAVEN: compound mechanism of action analysis and visualisation using transcriptomics and compound structure data in R/Shiny","publication_year":2023,"publication_date":"2023-09-15","ids":{"openalex":"https://openalex.org/W4386774951","doi":"https://doi.org/10.1186/s12859-023-05416-8","pmid":"https://pubmed.ncbi.nlm.nih.gov/37715141"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-023-05416-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-023-05416-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05416-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05416-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085528183","display_name":"Layla Hosseini-Gerami","orcid":"https://orcid.org/0000-0003-0948-2387"},"institutions":[{"id":"https://openalex.org/I177336056","display_name":"OSRAM (United States)","ror":"https://ror.org/045d0h266","country_code":"US","type":"company","lineage":["https://openalex.org/I177336056","https://openalex.org/I4210103613"]},{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB","US"],"is_corresponding":true,"raw_author_name":"Layla Hosseini-Gerami","raw_affiliation_strings":["Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK. laylagerami@hotmail.com","Ignota Labs, London, UK. laylagerami@hotmail.com","Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK"],"raw_orcid":"https://orcid.org/0000-0003-0948-2387","affiliations":[{"raw_affiliation_string":"Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK. laylagerami@hotmail.com","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Ignota Labs, London, UK. laylagerami@hotmail.com","institution_ids":["https://openalex.org/I177336056"]},{"raw_affiliation_string":"Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022516040","display_name":"Rosa Hernansaiz Ballesteros","orcid":null},"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":"Rosa Hernansaiz Ballesteros","raw_affiliation_strings":["Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Bioquant, Heidelberg University, Heidelberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Bioquant, Heidelberg University, Heidelberg, Germany","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029659969","display_name":"Anika Liu","orcid":"https://orcid.org/0000-0002-8561-4700"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Anika Liu","raw_affiliation_strings":["Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027331626","display_name":"Howard B. Broughton","orcid":"https://orcid.org/0000-0002-3293-3775"},"institutions":[{"id":"https://openalex.org/I4210128228","display_name":"Eli Lilly (Spain)","ror":"https://ror.org/033911096","country_code":"ES","type":"company","lineage":["https://openalex.org/I168537998","https://openalex.org/I4210128228"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Howard Broughton","raw_affiliation_strings":["Eli Lilly and Company Centre de Investigacion, Alcobendas, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Eli Lilly and Company Centre de Investigacion, Alcobendas, Spain","institution_ids":["https://openalex.org/I4210128228"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008683089","display_name":"David Collier","orcid":"https://orcid.org/0000-0003-4087-1559"},"institutions":[{"id":"https://openalex.org/I4210095227","display_name":"Eli Lilly (United Kingdom)","ror":"https://ror.org/00psab413","country_code":"GB","type":"company","lineage":["https://openalex.org/I168537998","https://openalex.org/I4210095227"]},{"id":"https://openalex.org/I4210143578","display_name":"Genomics England","ror":"https://ror.org/04rxxfz69","country_code":"GB","type":"other","lineage":["https://openalex.org/I1311074006","https://openalex.org/I4210143578"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"David Andrew Collier","raw_affiliation_strings":["Eli Lilly and Company, Bracknell, UK","King's College London, and Genetics and Genomics Consulting, Surrey, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Eli Lilly and Company, Bracknell, UK","institution_ids":["https://openalex.org/I4210095227"]},{"raw_affiliation_string":"King's College London, and Genetics and Genomics Consulting, Surrey, UK","institution_ids":["https://openalex.org/I4210143578"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026643759","display_name":"Andreas Bender","orcid":"https://orcid.org/0000-0002-6683-7546"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Andreas Bender","raw_affiliation_strings":["Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK. ab454@cam.ac.uk","Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK. ab454@cam.ac.uk","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Centre for Molecular Informatics, Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5085528183"],"corresponding_institution_ids":["https://openalex.org/I177336056","https://openalex.org/I241749"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.4238,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.66649744,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"24","issue":"1","first_page":"344","last_page":"344"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.589900016784668,"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":0.589900016784668,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.11309999972581863,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.06930000334978104,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/visualization","display_name":"Visualization","score":0.5873600244522095},{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.5702329277992249},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.569434404373169},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5664347410202026},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4592975676059723},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44890302419662476},{"id":"https://openalex.org/keywords/mechanism-of-action","display_name":"Mechanism of action","score":0.42897123098373413},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30435335636138916},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.2869684398174286},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15413424372673035},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0947449803352356},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.08947053551673889},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.06649443507194519}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5873600244522095},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.5702329277992249},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.569434404373169},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5664347410202026},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4592975676059723},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44890302419662476},{"id":"https://openalex.org/C2776120743","wikidata":"https://www.wikidata.org/wiki/Q3271540","display_name":"Mechanism of action","level":3,"score":0.42897123098373413},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30435335636138916},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2869684398174286},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15413424372673035},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0947449803352356},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08947053551673889},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.06649443507194519},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C202751555","wikidata":"https://www.wikidata.org/wiki/Q221681","display_name":"In vitro","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016503","descriptor_name":"Drug Delivery Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016503","descriptor_name":"Drug Delivery Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016503","descriptor_name":"Drug Delivery Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-023-05416-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-023-05416-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05416-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37715141","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37715141","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10502988","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10502988","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10502988/pdf/12859_2023_Article_5416.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:e3c8dbd4bde94c8fb1a528914f5bed91","is_oa":true,"landing_page_url":"https://doaj.org/article/e3c8dbd4bde94c8fb1a528914f5bed91","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 24, Iss 1, Pp 1-17 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-023-05416-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-023-05416-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05416-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1535130713","display_name":null,"funder_award_id":"H2020-ICT","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G340029323","display_name":null,"funder_award_id":"BB/M011194/1","funder_id":"https://openalex.org/F4320307758","funder_display_name":"Eli Lilly and Company"},{"id":"https://openalex.org/G4937468798","display_name":null,"funder_award_id":"H2020","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5330140934","display_name":null,"funder_award_id":"BB/M011194","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5451116430","display_name":"individualizedPaediatricCure: Cloud-based virtual-patient models for precision paediatric oncology","funder_award_id":"826121","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G560731474","display_name":"Cambridge Doctoral Training Partnership - 2","funder_award_id":"BB/M011194/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G675428038","display_name":null,"funder_award_id":"826121","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G7463726016","display_name":null,"funder_award_id":"826121","funder_id":"https://openalex.org/F4320335254","funder_display_name":"Horizon 2020"},{"id":"https://openalex.org/G8989999543","display_name":null,"funder_award_id":"2110926","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320307758","display_name":"Eli Lilly and Company","ror":"https://ror.org/01qat3289"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"},{"id":"https://openalex.org/F4320335254","display_name":"Horizon 2020","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4386774951.pdf"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W1495258543","https://openalex.org/W1869829652","https://openalex.org/W1982646704","https://openalex.org/W1989277387","https://openalex.org/W1997579117","https://openalex.org/W2010457001","https://openalex.org/W2016434015","https://openalex.org/W2020541351","https://openalex.org/W2067114310","https://openalex.org/W2096541451","https://openalex.org/W2103017472","https://openalex.org/W2125819588","https://openalex.org/W2127465196","https://openalex.org/W2130410032","https://openalex.org/W2159675211","https://openalex.org/W2161139034","https://openalex.org/W2167778120","https://openalex.org/W2168041374","https://openalex.org/W2171990088","https://openalex.org/W2177317049","https://openalex.org/W2214074259","https://openalex.org/W2327079070","https://openalex.org/W2405259065","https://openalex.org/W2470644820","https://openalex.org/W2472255748","https://openalex.org/W2557833574","https://openalex.org/W2559145072","https://openalex.org/W2612467560","https://openalex.org/W2767914218","https://openalex.org/W2806547269","https://openalex.org/W2807099390","https://openalex.org/W2952391626","https://openalex.org/W2964315448","https://openalex.org/W2964674272","https://openalex.org/W2970670811","https://openalex.org/W2982368177","https://openalex.org/W2986455832","https://openalex.org/W3007199577","https://openalex.org/W3124569282","https://openalex.org/W3194368700","https://openalex.org/W3205489811","https://openalex.org/W3208721559","https://openalex.org/W4200370303","https://openalex.org/W4206552785","https://openalex.org/W4210679288","https://openalex.org/W4233698560","https://openalex.org/W4240082606","https://openalex.org/W4242404314","https://openalex.org/W4366279671"],"related_works":["https://openalex.org/W2399513595","https://openalex.org/W4388386498","https://openalex.org/W2068608913","https://openalex.org/W2028462563","https://openalex.org/W2982720988","https://openalex.org/W3150324899","https://openalex.org/W4392059188","https://openalex.org/W3124914020","https://openalex.org/W4388725868","https://openalex.org/W2382997850"],"abstract_inverted_index":{"BACKGROUND:":[0],"Understanding":[1],"the":[2,135,140,177,191],"Mechanism":[3,214],"of":[4,7,18,95,108,134,137,139,167,212,215],"Action":[5,96],"(MoA)":[6],"a":[8,131,147,165,196,222,233,241],"compound":[9,213],"is":[10,144,194,219,246],"an":[11,100],"often":[12,64],"challenging":[13],"but":[14],"equally":[15],"crucial":[16],"aspect":[17],"drug":[19,42,109],"discovery":[20],"that":[21],"can":[22],"help":[23],"improve":[24],"both":[25],"its":[26],"efficacy":[27],"and":[28,61,79,98,124,180],"safety.":[29],"Computational":[30],"methods":[31,55],"to":[32,39,46,76,154,172,187,208,230],"aid":[33],"MoA":[34],"elucidation":[35],"usually":[36,56],"either":[37],"aim":[38],"predict":[40],"direct":[41],"targets,":[43],"or":[44,51,151,205,235],"attempt":[45],"understand":[47],"modulated":[48,155],"downstream":[49],"pathways":[50],"signalling":[52,160],"proteins.":[53,161],"Such":[54],"require":[57],"extensive":[58,203],"coding":[59],"experience":[60],"results":[62],"are":[63],"optimised":[65],"for":[66,73,105,183,200],"further":[67],"computational":[68],"processing,":[69],"making":[70],"them":[71],"difficult":[72],"wet-lab":[74],"scientists":[75],"perform,":[77],"interpret":[78],"draw":[80],"hypotheses":[81,211],"from.":[82],"RESULTS:":[83],"To":[84],"address":[85],"this":[86,90],"issue,":[87],"we":[88],"in":[89,232],"work":[91],"present":[92],"MAVEN":[93,193,218],"(Mechanism":[94],"Visualisation":[97],"Enrichment),":[99],"R/Shiny":[101],"app":[102,129],"which":[103],"allows":[104,182],"GUI-based":[106],"prediction":[107],"targets":[110,153],"based":[111,119],"on":[112,120,176,243],"chemical":[113],"structure,":[114],"combined":[115],"with":[116,228],"causal":[117,121],"reasoning":[118],"protein-protein":[122],"interactions":[123],"transcriptomic":[125],"perturbation":[126],"signatures.":[127],"The":[128,162],"computes":[130],"systems-level":[132],"view":[133],"mechanism":[136],"action":[138],"input":[141],"compound.":[142],"This":[143],"visualised":[145],"as":[146,221],"sub-network":[148],"linking":[149],"predicted":[150],"known":[152],"transcription":[156],"factors":[157],"via":[158],"inferred":[159],"tool":[163,199,225],"includes":[164],"selection":[166],"MSigDB":[168],"gene":[169,185],"set":[170],"collections":[171],"perform":[173],"pathway":[174],"enrichment":[175],"resulting":[178],"network,":[179],"also":[181],"custom":[184],"sets":[186],"be":[188],"uploaded":[189],"by":[190],"researcher.":[192],"hence":[195],"user-friendly,":[197],"flexible":[198],"researchers":[201],"without":[202],"bioinformatics":[204],"cheminformatics":[206],"knowledge":[207],"generate":[209],"interpretable":[210],"Action.":[216],"CONCLUSIONS:":[217],"available":[220,247],"fully":[223],"open-source":[224],"at":[226,248],"https://github.com/laylagerami/MAVEN":[227],"options":[229],"install":[231],"Docker":[234],"Singularity":[236],"container.":[237],"Full":[238],"documentation,":[239],"including":[240],"tutorial":[242],"example":[244],"data,":[245],"https://laylagerami.github.io/MAVEN":[249],".":[250]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-06-22T08:00:12.763002","created_date":"2025-10-10T00:00:00"}
