{"id":"https://openalex.org/W7147054559","doi":"https://doi.org/10.1016/j.patter.2026.101536","title":"Helix 1.0: An open-source framework for reproducible and interpretable machine learning on tabular scientific data","display_name":"Helix 1.0: An open-source framework for reproducible and interpretable machine learning on tabular scientific data","publication_year":2026,"publication_date":"2026-04-01","ids":{"openalex":"https://openalex.org/W7147054559","doi":"https://doi.org/10.1016/j.patter.2026.101536"},"language":"en","primary_location":{"id":"doi:10.1016/j.patter.2026.101536","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.patter.2026.101536","pdf_url":null,"source":{"id":"https://openalex.org/S4210198061","display_name":"Patterns","issn_l":"2666-3899","issn":["2666-3899"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Patterns","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1016/j.patter.2026.101536","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Eduardo Aguilar-Bejarano","orcid":"https://orcid.org/0009-0007-6251-2350"},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Eduardo Aguilar-Bejarano","raw_affiliation_strings":["Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK"],"raw_orcid":"https://orcid.org/0009-0007-6251-2350","affiliations":[{"raw_affiliation_string":"Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Daniel Lea","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Daniel Lea","raw_affiliation_strings":["Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Karthikeyan Sivakumar","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Karthikeyan Sivakumar","raw_affiliation_strings":["Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","Health Informatics, School of Medicine, University of Nottingham, Medical School, Nottingham NG7 2UH, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","institution_ids":["https://openalex.org/I142263535"]},{"raw_affiliation_string":"Health Informatics, School of Medicine, University of Nottingham, Medical School, Nottingham NG7 2UH, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Jimiama M. Mase","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Jimiama M. Mase","raw_affiliation_strings":["Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Reza Omidvar","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Reza Omidvar","raw_affiliation_strings":["Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Ruizhe Li","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Ruizhe Li","raw_affiliation_strings":["School of Computer Science, University of Nottingham, Jubilee Campus, Wollaton Road, Nottingham NG8 1BB, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of Nottingham, Jubilee Campus, Wollaton Road, Nottingham NG8 1BB, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Troy Kettle","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Troy Kettle","raw_affiliation_strings":["School of Computer Science, University of Nottingham, Jubilee Campus, Wollaton Road, Nottingham NG8 1BB, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of Nottingham, Jubilee Campus, Wollaton Road, Nottingham NG8 1BB, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"James Mitchell-White","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"James Mitchell-White","raw_affiliation_strings":["Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","Health Informatics, School of Medicine, University of Nottingham, Medical School, Nottingham NG7 2UH, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital Research Service, University of Nottingham, Kings Meadow Campus, Lenton Lane, Nottingham NG7 2NR, UK","institution_ids":["https://openalex.org/I142263535"]},{"raw_affiliation_string":"Health Informatics, School of Medicine, University of Nottingham, Medical School, Nottingham NG7 2UH, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Morgan R. Alexander","orcid":null},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Morgan R. Alexander","raw_affiliation_strings":["School of Pharmacy, University of Nottingham, University Park, Nottingham NG7 2RD, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Nottingham, University Park, Nottingham NG7 2RD, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"David A. Winkler","orcid":null},"institutions":[{"id":"https://openalex.org/I196829312","display_name":"La Trobe University","ror":"https://ror.org/01rxfrp27","country_code":"AU","type":"education","lineage":["https://openalex.org/I196829312"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"David A. Winkler","raw_affiliation_strings":["Department of Biochemistry and Chemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Bundoora, VIC 3086, Australia","Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, VIC 3052, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Chemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Bundoora, VIC 3086, Australia","institution_ids":["https://openalex.org/I196829312"]},{"raw_affiliation_string":"Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, VIC 3052, Australia","institution_ids":["https://openalex.org/I56590836"]}]},{"author_position":"last","author":{"id":null,"display_name":"Grazziela Figueredo","orcid":"https://orcid.org/0000-0003-4094-7680"},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Grazziela Figueredo","raw_affiliation_strings":["Health Informatics, School of Medicine, University of Nottingham, Medical School, Nottingham NG7 2UH, UK"],"raw_orcid":"https://orcid.org/0000-0003-4094-7680","affiliations":[{"raw_affiliation_string":"Health Informatics, School of Medicine, University of Nottingham, Medical School, Nottingham NG7 2UH, UK","institution_ids":["https://openalex.org/I142263535"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":11,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I142263535"],"apc_list":{"value":5200,"currency":"USD","value_usd":5200},"apc_paid":{"value":5200,"currency":"USD","value_usd":5200},"fwci":17.2951,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.99090787,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"7","issue":"5","first_page":"101536","last_page":"101536"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.2554999887943268,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.2554999887943268,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T12026","display_name":"Explainable Artificial Intelligence (XAI)","score":0.07670000195503235,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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":0.060499999672174454,"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/helix","display_name":"Helix (gastropod)","score":0.30790001153945923},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.30160000920295715},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.2797999978065491},{"id":"https://openalex.org/keywords/training-set","display_name":"Training set","score":0.26840001344680786},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.23229999840259552}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6549999713897705},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6096000075340271},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5},{"id":"https://openalex.org/C2778530040","wikidata":"https://www.wikidata.org/wiki/Q1937315","display_name":"Helix (gastropod)","level":3,"score":0.30790001153945923},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.30160000920295715},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.2797999978065491},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.27950000762939453},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.26840001344680786},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.23229999840259552},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.22779999673366547}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1016/j.patter.2026.101536","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.patter.2026.101536","pdf_url":null,"source":{"id":"https://openalex.org/S4210198061","display_name":"Patterns","issn_l":"2666-3899","issn":["2666-3899"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Patterns","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1016/j.patter.2026.101536","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.patter.2026.101536","pdf_url":null,"source":{"id":"https://openalex.org/S4210198061","display_name":"Patterns","issn_l":"2666-3899","issn":["2666-3899"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Patterns","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5743075013160706,"id":"https://metadata.un.org/sdg/5","display_name":"Gender equality"}],"awards":[{"id":"https://openalex.org/G2763342643","display_name":"Designing bio-instructive materials for translation ready medical devices","funder_award_id":"EP/X001156/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W2024476015","https://openalex.org/W2076498053","https://openalex.org/W2119821739","https://openalex.org/W2122825543","https://openalex.org/W2238337252","https://openalex.org/W2302501749","https://openalex.org/W2342603028","https://openalex.org/W2987201163","https://openalex.org/W3039617216","https://openalex.org/W3086127638","https://openalex.org/W3121050787","https://openalex.org/W4239106607","https://openalex.org/W4252208101","https://openalex.org/W4296012786","https://openalex.org/W4306173528","https://openalex.org/W4411428707"],"related_works":[],"abstract_inverted_index":{"Helix":[0,90],"is":[1],"an":[2,120],"open-source,":[3],"extensible,":[4],"Python-based":[5],"software":[6],"framework":[7],"to":[8,48,84,111],"facilitate":[9],"reproducible":[10],"and":[11,40,46,68,87,102],"interpretable":[12],"machine":[13,60,112],"learning":[14,61,113],"workflows":[15],"for":[16,24,55,71],"tabular":[17],"data.":[18,73],"It":[19],"addresses":[20],"the":[21,32,97],"growing":[22],"need":[23],"transparent":[25],"experimental":[26],"data":[27,38,57,82],"analytics":[28],"provenance,":[29],"ensuring":[30],"that":[31,95],"entire":[33],"analytical":[34],"process\u2014including":[35],"decisions":[36,114],"around":[37],"transformation":[39],"methodological":[41],"choices\u2014is":[42],"documented,":[43],"accessible,":[44],"reproducible,":[45],"comprehensible":[47],"relevant":[49],"stakeholders.":[50],"The":[51],"platform":[52],"comprises":[53],"modules":[54],"standardized":[56],"preprocessing,":[58],"visualization,":[59],"model":[62,69],"training,":[63],"evaluation,":[64],"interpretation,":[65],"results":[66],"inspection,":[67],"prediction":[70],"unseen":[72],"To":[74],"further":[75],"empower":[76],"researchers":[77],"without":[78],"formal":[79],"training":[80],"in":[81],"science":[83],"derive":[85],"meaningful":[86],"actionable":[88],"insights,":[89],"features":[91],"a":[92,107],"user-friendly":[93],"interface":[94],"enables":[96],"design":[98],"of":[99,104],"computational":[100],"experiments":[101],"inspection":[103],"outcomes,":[105],"including":[106],"novel":[108],"interpretation":[109],"approach":[110],"using":[115],"linguistic":[116],"terms":[117],"all":[118],"within":[119],"integrated":[121],"environment.":[122]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-06-13T06:13:01.061226","created_date":"2026-03-15T00:00:00"}
