{"id":"https://openalex.org/W4386209142","doi":"https://doi.org/10.1093/bib/bbad307","title":"A systematic benchmark of machine learning methods for protein\u2013RNA interaction prediction","display_name":"A systematic benchmark of machine learning methods for protein\u2013RNA interaction prediction","publication_year":2023,"publication_date":"2023-08-07","ids":{"openalex":"https://openalex.org/W4386209142","doi":"https://doi.org/10.1093/bib/bbad307","pmid":"https://pubmed.ncbi.nlm.nih.gov/37635383"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad307","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad307","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad307/51273700/bbad307.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad307/51273700/bbad307.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003924863","display_name":"Marc Horlacher","orcid":"https://orcid.org/0000-0002-7884-7135"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Marc Horlacher","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany","School of Computation, Information and Technology, Technical University Munich (TUM) , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"School of Computation, Information and Technology, Technical University Munich (TUM) , Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052580834","display_name":"Giulia Cantini","orcid":"https://orcid.org/0000-0002-9159-9199"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Giulia Cantini","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014438255","display_name":"Julian Hesse","orcid":null},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Julian Hesse","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089614979","display_name":"Patrick Schinke","orcid":"https://orcid.org/0000-0002-0422-3215"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Patrick Schinke","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050737017","display_name":"Nicolas Goedert","orcid":null},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Nicolas Goedert","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073223542","display_name":"Shubhankar Londhe","orcid":"https://orcid.org/0000-0002-1220-6650"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Shubhankar Londhe","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056850681","display_name":"Lambert Moyon","orcid":"https://orcid.org/0000-0003-2390-3942"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Lambert Moyon","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002170384","display_name":"Annalisa Marsico","orcid":"https://orcid.org/0000-0002-6623-7495"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Annalisa Marsico","raw_affiliation_strings":["Computational Health Center , Helmholtz Center Munich , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Health Center , Helmholtz Center Munich , Germany","institution_ids":["https://openalex.org/I3018134672"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5002170384","https://openalex.org/A5056850681"],"corresponding_institution_ids":["https://openalex.org/I3018134672"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":3.7673,"has_fulltext":true,"cited_by_count":28,"citation_normalized_percentile":{"value":0.93853928,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"24","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.9998999834060669,"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/T10604","display_name":"RNA Research and Splicing","score":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998000264167786,"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/T11482","display_name":"RNA modifications and cancer","score":0.9998000264167786,"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/benchmark","display_name":"Benchmark (surveying)","score":0.7947092056274414},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6956971287727356},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6205254793167114},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5794398784637451}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7947092056274414},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6956971287727356},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6205254793167114},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5794398784637451},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbad307","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad307","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad307/51273700/bbad307.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37635383","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37635383","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10516373","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10516373","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10516373/pdf/bbad307.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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbad307","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad307","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad307/51273700/bbad307.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4300000071525574,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G352032148","display_name":null,"funder_award_id":"SFB/TR501 84 TP C01","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G4472029391","display_name":null,"funder_award_id":"TP C01","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6632527525","display_name":null,"funder_award_id":"SFB/TR501 84","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320325698","display_name":"Helmholtz Association","ror":null}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4386209142.pdf"},"referenced_works_count":94,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1592870802","https://openalex.org/W1614298861","https://openalex.org/W1951403192","https://openalex.org/W1964465701","https://openalex.org/W1978883675","https://openalex.org/W1985217779","https://openalex.org/W1997535872","https://openalex.org/W2019381697","https://openalex.org/W2044117548","https://openalex.org/W2053003053","https://openalex.org/W2103250001","https://openalex.org/W2103375140","https://openalex.org/W2105694586","https://openalex.org/W2114532236","https://openalex.org/W2129216514","https://openalex.org/W2132863465","https://openalex.org/W2136735223","https://openalex.org/W2145191876","https://openalex.org/W2147946837","https://openalex.org/W2150404344","https://openalex.org/W2159249646","https://openalex.org/W2167852161","https://openalex.org/W2233915997","https://openalex.org/W2285139619","https://openalex.org/W2307041907","https://openalex.org/W2323943568","https://openalex.org/W2336749345","https://openalex.org/W2481737556","https://openalex.org/W2522935375","https://openalex.org/W2752698886","https://openalex.org/W2762250455","https://openalex.org/W2774179785","https://openalex.org/W2786634643","https://openalex.org/W2799487719","https://openalex.org/W2801121099","https://openalex.org/W2807005157","https://openalex.org/W2890132714","https://openalex.org/W2890742416","https://openalex.org/W2893045341","https://openalex.org/W2896457183","https://openalex.org/W2906566809","https://openalex.org/W2918598256","https://openalex.org/W2935703330","https://openalex.org/W2941152881","https://openalex.org/W2942090527","https://openalex.org/W2944704300","https://openalex.org/W2946936654","https://openalex.org/W2950463913","https://openalex.org/W2951195117","https://openalex.org/W2951748044","https://openalex.org/W2953051245","https://openalex.org/W2958675005","https://openalex.org/W2971655612","https://openalex.org/W2971759641","https://openalex.org/W2976217562","https://openalex.org/W2997372097","https://openalex.org/W3003684254","https://openalex.org/W3036197410","https://openalex.org/W3042874372","https://openalex.org/W3043851516","https://openalex.org/W3046003662","https://openalex.org/W3047957270","https://openalex.org/W3078303041","https://openalex.org/W3106930452","https://openalex.org/W3107307063","https://openalex.org/W3110121217","https://openalex.org/W3110692511","https://openalex.org/W3111061871","https://openalex.org/W3127238141","https://openalex.org/W3130271948","https://openalex.org/W3134329288","https://openalex.org/W3163257742","https://openalex.org/W3184615727","https://openalex.org/W3192648306","https://openalex.org/W3193881848","https://openalex.org/W3210032434","https://openalex.org/W3211440389","https://openalex.org/W4213419736","https://openalex.org/W4225917625","https://openalex.org/W4242177601","https://openalex.org/W4247787147","https://openalex.org/W4283693600","https://openalex.org/W4327550249","https://openalex.org/W6636510571","https://openalex.org/W6649751503","https://openalex.org/W6727576751","https://openalex.org/W6743731764","https://openalex.org/W6746361843","https://openalex.org/W6752350721","https://openalex.org/W6755207826","https://openalex.org/W6785818786","https://openalex.org/W6787497963","https://openalex.org/W6840065848"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W3046775127","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W3107602296","https://openalex.org/W4364306694","https://openalex.org/W4312192474","https://openalex.org/W4283697347"],"abstract_inverted_index":{"RNA-binding":[0],"proteins":[1],"(RBPs)":[2],"are":[3,18],"central":[4],"actors":[5],"of":[6,14,52,61,70,79,98,104,124,131],"RNA":[7],"post-transcriptional":[8],"regulation.":[9],"Experiments":[10],"to":[11,20,34,151],"profile-binding":[12],"sites":[13],"RBPs":[15,62],"in":[16,23,88,122,167],"vivo":[17,89],"limited":[19],"transcripts":[21],"expressed":[22],"the":[24,29,129,153],"experimental":[25],"cell":[26],"type,":[27],"creating":[28],"need":[30],"for":[31,47,87,157,177],"computational":[32],"methods":[33,43,86,101,121,171],"infer":[35],"missing":[36],"binding":[37],"information.":[38],"While":[39],"numerous":[40],"machine-learning":[41],"based":[42],"have":[44],"been":[45],"developed":[46],"this":[48,144],"task,":[49],"their":[50,71,158,178],"use":[51],"heterogeneous":[53],"training":[54],"and":[55,63,93,107,113,127,135],"evaluation":[56],"datasets":[57,106],"across":[58,102],"different":[59],"sets":[60],"CLIP-seq":[64,105],"protocols":[65],"makes":[66],"a":[67,77,96,174],"direct":[68],"comparison":[69],"performance":[72,126],"difficult.":[73],"Here,":[74],"we":[75,119],"compile":[76],"set":[78],"37":[80],"machine":[81],"learning":[82],"(primarily":[83],"deep":[84],"learning)":[85],"RBP-RNA":[90],"interaction":[91],"prediction":[92,155],"systematically":[94],"benchmark":[95],"subset":[97],"11":[99],"representative":[100],"hundreds":[103],"RBPs.":[108],"Using":[109],"homogenized":[110],"sample":[111,116],"pre-processing":[112],"two":[114],"negative-class":[115],"generation":[117],"strategies,":[118],"evaluate":[120],"terms":[123],"predictive":[125],"assess":[128],"impact":[130],"neural":[132],"network":[133],"architectures":[134],"input":[136],"modalities":[137],"on":[138],"model":[139],"performance.":[140],"We":[141],"believe":[142],"that":[143],"study":[145],"will":[146],"not":[147],"only":[148],"enable":[149],"researchers":[150],"choose":[152],"optimal":[154],"method":[156,165],"tasks":[159],"at":[160],"hand,":[161],"but":[162],"also":[163],"aid":[164],"developers":[166],"developing":[168],"novel,":[169],"high-performing":[170],"by":[172],"introducing":[173],"standardized":[175],"framework":[176],"evaluation.":[179]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
