{"id":"https://openalex.org/W4416222445","doi":"https://doi.org/10.1093/bioinformatics/btaf605","title":"HoloFoodR: a statistical programming framework for holo-omics data integration workflows","display_name":"HoloFoodR: a statistical programming framework for holo-omics data integration workflows","publication_year":2025,"publication_date":"2025-11-01","ids":{"openalex":"https://openalex.org/W4416222445","doi":"https://doi.org/10.1093/bioinformatics/btaf605","pmid":"https://pubmed.ncbi.nlm.nih.gov/41206936"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf605","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf605","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf605/65248502/btaf605.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"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/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf605/65248502/btaf605.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5026860301","display_name":"Tuomas Borman","orcid":"https://orcid.org/0000-0002-8563-8884"},"institutions":[{"id":"https://openalex.org/I155660961","display_name":"University of Turku","ror":"https://ror.org/05vghhr25","country_code":"FI","type":"education","lineage":["https://openalex.org/I155660961"]},{"id":"https://openalex.org/I16231767","display_name":"Turku University of Applied Sciences","ror":"https://ror.org/04s0yt949","country_code":"FI","type":"education","lineage":["https://openalex.org/I16231767"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Tuomas Borman","raw_affiliation_strings":["Department of Computing, University of Turku , Turku 20014,","Department of Computing, University of Turku, Turku, 20014, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computing, University of Turku , Turku 20014,","institution_ids":["https://openalex.org/I155660961","https://openalex.org/I16231767"]},{"raw_affiliation_string":"Department of Computing, University of Turku, Turku, 20014, Finland","institution_ids":["https://openalex.org/I155660961","https://openalex.org/I16231767"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054812082","display_name":"Artur Sannikov","orcid":"https://orcid.org/0000-0001-7765-123X"},"institutions":[{"id":"https://openalex.org/I155660961","display_name":"University of Turku","ror":"https://ror.org/05vghhr25","country_code":"FI","type":"education","lineage":["https://openalex.org/I155660961"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Artur Sannikov","raw_affiliation_strings":["Department of Life Technologies, University of Turku , Turku 20014,","Department of Life Technologies, University of Turku, Turku, 20014, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Life Technologies, University of Turku , Turku 20014,","institution_ids":["https://openalex.org/I155660961"]},{"raw_affiliation_string":"Department of Life Technologies, University of Turku, Turku, 20014, Finland","institution_ids":["https://openalex.org/I155660961"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104045098","display_name":"ROBERT FINN","orcid":"https://orcid.org/0000-0001-8626-2148"},"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"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Robert D Finn","raw_affiliation_strings":["Wellcome Genome Campus, EMBL-EBI , Hinxton, Cambridgeshire CB10 1SA,","Wellcome Genome Campus, EMBL-EBI, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Wellcome Genome Campus, EMBL-EBI , Hinxton, Cambridgeshire CB10 1SA,","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"Wellcome Genome Campus, EMBL-EBI, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073868944","display_name":"Morten T. Limborg","orcid":null},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Morten T\u00f8nsberg Limborg","raw_affiliation_strings":["Center for Evolutionary Hologenomics, GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen , Copenhagen 1353,","Center for Evolutionary Hologenomics, GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 1353, Denmark"],"affiliations":[{"raw_affiliation_string":"Center for Evolutionary Hologenomics, GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen , Copenhagen 1353,","institution_ids":["https://openalex.org/I124055696"]},{"raw_affiliation_string":"Center for Evolutionary Hologenomics, GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 1353, Denmark","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012056326","display_name":"Alexander B. Rogers","orcid":"https://orcid.org/0000-0002-4283-6135"},"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"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alexander B Rogers","raw_affiliation_strings":["Wellcome Genome Campus, EMBL-EBI , Hinxton, Cambridgeshire CB10 1SA,","Wellcome Genome Campus, EMBL-EBI, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Wellcome Genome Campus, EMBL-EBI , Hinxton, Cambridgeshire CB10 1SA,","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"Wellcome Genome Campus, EMBL-EBI, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071366091","display_name":"Varsha Kale","orcid":"https://orcid.org/0000-0002-3503-6383"},"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"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Varsha Kale","raw_affiliation_strings":["Wellcome Genome Campus, EMBL-EBI , Hinxton, Cambridgeshire CB10 1SA,","Wellcome Genome Campus, EMBL-EBI, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Wellcome Genome Campus, EMBL-EBI , Hinxton, Cambridgeshire CB10 1SA,","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"Wellcome Genome Campus, EMBL-EBI, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063506332","display_name":"Kati Hanhineva","orcid":"https://orcid.org/0000-0001-6834-7375"},"institutions":[{"id":"https://openalex.org/I155660961","display_name":"University of Turku","ror":"https://ror.org/05vghhr25","country_code":"FI","type":"education","lineage":["https://openalex.org/I155660961"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Kati Hanhineva","raw_affiliation_strings":["Department of Life Technologies, University of Turku , Turku 20014,","Department of Life Technologies, University of Turku, Turku, 20014, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Life Technologies, University of Turku , Turku 20014,","institution_ids":["https://openalex.org/I155660961"]},{"raw_affiliation_string":"Department of Life Technologies, University of Turku, Turku, 20014, Finland","institution_ids":["https://openalex.org/I155660961"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082648063","display_name":"Leo Lahti","orcid":"https://orcid.org/0000-0001-5537-637X"},"institutions":[{"id":"https://openalex.org/I155660961","display_name":"University of Turku","ror":"https://ror.org/05vghhr25","country_code":"FI","type":"education","lineage":["https://openalex.org/I155660961"]},{"id":"https://openalex.org/I16231767","display_name":"Turku University of Applied Sciences","ror":"https://ror.org/04s0yt949","country_code":"FI","type":"education","lineage":["https://openalex.org/I16231767"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Leo Lahti","raw_affiliation_strings":["Department of Computing, University of Turku , Turku 20014,","Department of Computing, University of Turku, Turku, 20014, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computing, University of Turku , Turku 20014,","institution_ids":["https://openalex.org/I155660961","https://openalex.org/I16231767"]},{"raw_affiliation_string":"Department of Computing, University of Turku, Turku, 20014, Finland","institution_ids":["https://openalex.org/I155660961","https://openalex.org/I16231767"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5026860301"],"corresponding_institution_ids":["https://openalex.org/I155660961","https://openalex.org/I16231767"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.30608837,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"41","issue":"11","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":0.210999995470047,"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":0.210999995470047,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.19850000739097595,"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"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.15929999947547913,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7228000164031982},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.6274999976158142},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.6223000288009644},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.6001999974250793},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.5705000162124634},{"id":"https://openalex.org/keywords/license","display_name":"License","score":0.4851999878883362},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.4490000009536743},{"id":"https://openalex.org/keywords/system-integration","display_name":"System integration","score":0.39730000495910645},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.396699994802475}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8159999847412109},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7228000164031982},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.6274999976158142},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.6223000288009644},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.6001999974250793},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.5705000162124634},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.5527999997138977},{"id":"https://openalex.org/C2780560020","wikidata":"https://www.wikidata.org/wiki/Q79719","display_name":"License","level":2,"score":0.4851999878883362},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.4668000042438507},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.4490000009536743},{"id":"https://openalex.org/C19527686","wikidata":"https://www.wikidata.org/wiki/Q1665453","display_name":"System integration","level":2,"score":0.39730000495910645},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.396699994802475},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37790000438690186},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.37290000915527344},{"id":"https://openalex.org/C2983685735","wikidata":"https://www.wikidata.org/wiki/Q5227355","display_name":"Data source","level":2,"score":0.33070001006126404},{"id":"https://openalex.org/C47487241","wikidata":"https://www.wikidata.org/wiki/Q5227230","display_name":"Data access","level":2,"score":0.3303000032901764},{"id":"https://openalex.org/C76518257","wikidata":"https://www.wikidata.org/wiki/Q271680","display_name":"Software framework","level":5,"score":0.325300008058548},{"id":"https://openalex.org/C33857546","wikidata":"https://www.wikidata.org/wiki/Q80006","display_name":"Computer programming","level":2,"score":0.3224000036716461},{"id":"https://openalex.org/C114289077","wikidata":"https://www.wikidata.org/wiki/Q3284399","display_name":"Statistical model","level":2,"score":0.32179999351501465},{"id":"https://openalex.org/C2987757206","wikidata":"https://www.wikidata.org/wiki/Q494735","display_name":"Statistical software","level":2,"score":0.30630001425743103},{"id":"https://openalex.org/C3020440742","wikidata":"https://www.wikidata.org/wiki/Q1176855","display_name":"Software package","level":3,"score":0.30630001425743103},{"id":"https://openalex.org/C2983325608","wikidata":"https://www.wikidata.org/wiki/Q17084606","display_name":"Data association","level":3,"score":0.3057999908924103},{"id":"https://openalex.org/C2986587452","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical analysis","level":2,"score":0.29510000348091125},{"id":"https://openalex.org/C176222170","wikidata":"https://www.wikidata.org/wiki/Q5157340","display_name":"Computational statistics","level":2,"score":0.29120001196861267},{"id":"https://openalex.org/C138827492","wikidata":"https://www.wikidata.org/wiki/Q6661985","display_name":"Data processing","level":2,"score":0.2858999967575073},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.28279998898506165},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.2651999890804291},{"id":"https://openalex.org/C137314826","wikidata":"https://www.wikidata.org/wiki/Q2330408","display_name":"Data mapping","level":2,"score":0.25619998574256897}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002645","descriptor_name":"Chickens","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002645","descriptor_name":"Chickens","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002645","descriptor_name":"Chickens","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012474","descriptor_name":"Salmon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012474","descriptor_name":"Salmon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012474","descriptor_name":"Salmon","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btaf605","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf605","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf605/65248502/btaf605.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41206936","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41206936","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pure.atira.dk:publications/9e5287d4-d0fc-4932-ac61-2ddaf4658a0c","is_oa":true,"landing_page_url":"https://researchprofiles.ku.dk/da/publications/9e5287d4-d0fc-4932-ac61-2ddaf4658a0c","pdf_url":"https://curis.ku.dk/ws/files/525488979/btaf605.pdf","source":{"id":"https://openalex.org/S4306401983","display_name":"Research at the University of Copenhagen (University of Copenhagen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I124055696","host_organization_name":"University of Copenhagen","host_organization_lineage":["https://openalex.org/I124055696"],"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":"Borman , T , Sannikov , A , Finn , R D , Limborg , M T , Rogers , A B , Kale , V , Hanhineva , K & Lahti , L 2025 , ' HoloFoodR : A statistical programming framework for holo-omics data integration workflows ' , Bioinformatics , vol. 41 , no. 11 , btaf605 . https://doi.org/10.1093/bioinformatics/btaf605","raw_type":"article"},{"id":"pmh:oai:europepmc.org:11425842","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12617744","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:www.utupub.fi:10024/196624","is_oa":false,"landing_page_url":"https://www.utupub.fi/handle/10024/196624","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf605","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf605","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf605/65248502/btaf605.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2673329949","display_name":null,"funder_award_id":"817729","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3034753964","display_name":null,"funder_award_id":"grant","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research Foundation"},{"id":"https://openalex.org/G4002138962","display_name":null,"funder_award_id":"DNRF143","funder_id":"https://openalex.org/F4320320943","funder_display_name":"Danmarks Grundforskningsfond"},{"id":"https://openalex.org/G4855324266","display_name":"Unified computational solutions to disentangle biological interactions in multi-omics data","funder_award_id":"952914","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6805740578","display_name":null,"funder_award_id":"DNRF14","funder_id":"https://openalex.org/F4320320943","funder_display_name":"Danmarks Grundforskningsfond"},{"id":"https://openalex.org/G8228173003","display_name":"A New Halo-Imidazolums and Halo-Triazoliums Halogen-Bonding Receptors for Anion Recognition and Sensing","funder_award_id":"321716","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/G8905364259","display_name":null,"funder_award_id":"DNRF143","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research Foundation"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320320943","display_name":"Danmarks Grundforskningsfond","ror":"https://ror.org/00znyv691"},{"id":"https://openalex.org/F4320322282","display_name":"Jane ja Aatos Erkon S\u00e4\u00e4ti\u00f6","ror":"https://ror.org/03vxy9y38"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4416222445.pdf","grobid_xml":"https://content.openalex.org/works/W4416222445.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W2160222743","https://openalex.org/W2160697532","https://openalex.org/W2302501749","https://openalex.org/W2787490724","https://openalex.org/W2895692830","https://openalex.org/W2899542898","https://openalex.org/W2952076809","https://openalex.org/W2952200190","https://openalex.org/W2974110266","https://openalex.org/W2989807288","https://openalex.org/W3004116476","https://openalex.org/W3027051073","https://openalex.org/W3044646968","https://openalex.org/W3113946399","https://openalex.org/W3127298225","https://openalex.org/W4230085039","https://openalex.org/W4388946655","https://openalex.org/W4391386649","https://openalex.org/W4394855615","https://openalex.org/W4400456721","https://openalex.org/W4403883766","https://openalex.org/W4404636200","https://openalex.org/W4406287917","https://openalex.org/W4415714065","https://openalex.org/W6925376296"],"related_works":[],"abstract_inverted_index":{"HoloFoodR":[0],"R/Bioconductor":[1],"package":[2,17],"and":[3],"the":[4,10,16],"source":[5],"code":[6],"are":[7],"available":[8],"under":[9],"open-source":[11],"Artistic":[12],"License":[13],"2.0":[14],"at":[15],"homepage":[18],"https://doi.org/10.18129/B9.bioc.HoloFoodR.":[19]},"counts_by_year":[],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-11-09T00:00:00"}
