{"id":"https://openalex.org/W4387500504","doi":"https://doi.org/10.3389/fbinf.2023.1275787","title":"DeepRaccess: high-speed RNA accessibility prediction using deep learning","display_name":"DeepRaccess: high-speed RNA accessibility prediction using deep learning","publication_year":2023,"publication_date":"2023-10-10","ids":{"openalex":"https://openalex.org/W4387500504","doi":"https://doi.org/10.3389/fbinf.2023.1275787","pmid":"https://pubmed.ncbi.nlm.nih.gov/37881622"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2023.1275787","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2023.1275787","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1275787/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1275787/pdf?isPublishedV2=False","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5104120613","display_name":"Kaisei Hara","orcid":null},"institutions":[{"id":"https://openalex.org/I150744194","display_name":"Waseda University","ror":"https://ror.org/00ntfnx83","country_code":"JP","type":"education","lineage":["https://openalex.org/I150744194"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kaisei Hara","raw_affiliation_strings":["Computational Bio Big-Data Open Innovation Laboratory, AIST-Waseda University, Tokyo, Japan","Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Bio Big-Data Open Innovation Laboratory, AIST-Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]},{"raw_affiliation_string":"Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076933024","display_name":"Natsuki Iwano","orcid":"https://orcid.org/0000-0001-5603-8903"},"institutions":[{"id":"https://openalex.org/I150744194","display_name":"Waseda University","ror":"https://ror.org/00ntfnx83","country_code":"JP","type":"education","lineage":["https://openalex.org/I150744194"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Natsuki Iwano","raw_affiliation_strings":["Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085566781","display_name":"Tsukasa Fukunaga","orcid":"https://orcid.org/0000-0003-4442-6049"},"institutions":[{"id":"https://openalex.org/I150744194","display_name":"Waseda University","ror":"https://ror.org/00ntfnx83","country_code":"JP","type":"education","lineage":["https://openalex.org/I150744194"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Tsukasa Fukunaga","raw_affiliation_strings":["Waseda Institute for Advanced Study, Waseda University, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Waseda Institute for Advanced Study, Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025857432","display_name":"Michiaki Hamada","orcid":"https://orcid.org/0000-0001-9466-1034"},"institutions":[{"id":"https://openalex.org/I150744194","display_name":"Waseda University","ror":"https://ror.org/00ntfnx83","country_code":"JP","type":"education","lineage":["https://openalex.org/I150744194"]},{"id":"https://openalex.org/I80188885","display_name":"Nippon Medical School","ror":"https://ror.org/00krab219","country_code":"JP","type":"education","lineage":["https://openalex.org/I80188885"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Michiaki Hamada","raw_affiliation_strings":["Computational Bio Big-Data Open Innovation Laboratory, AIST-Waseda University, Tokyo, Japan","Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan","Graduate School of Medicine, Nippon Medical School, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Bio Big-Data Open Innovation Laboratory, AIST-Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]},{"raw_affiliation_string":"Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]},{"raw_affiliation_string":"Graduate School of Medicine, Nippon Medical School, Tokyo, Japan","institution_ids":["https://openalex.org/I80188885"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5025857432","https://openalex.org/A5085566781"],"corresponding_institution_ids":["https://openalex.org/I150744194","https://openalex.org/I80188885"],"apc_list":{"value":2125,"currency":"USD","value_usd":2125},"apc_paid":{"value":2125,"currency":"USD","value_usd":2125},"fwci":0.4681,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.59027897,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"3","issue":null,"first_page":"1275787","last_page":"1275787"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9979000091552734,"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/rna","display_name":"RNA","score":0.6921473741531372},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6613066792488098},{"id":"https://openalex.org/keywords/translation","display_name":"Translation (biology)","score":0.543910801410675},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4745279848575592},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.47032010555267334},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.4521012306213379},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.43545907735824585},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.42717570066452026},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4269178807735443},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.419231116771698},{"id":"https://openalex.org/keywords/nucleic-acid-secondary-structure","display_name":"Nucleic acid secondary structure","score":0.41219067573547363},{"id":"https://openalex.org/keywords/messenger-rna","display_name":"Messenger RNA","score":0.3646193742752075},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3263477683067322},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19373151659965515},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1701027750968933},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15882468223571777},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.13761109113693237}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6921473741531372},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6613066792488098},{"id":"https://openalex.org/C149364088","wikidata":"https://www.wikidata.org/wiki/Q185917","display_name":"Translation (biology)","level":4,"score":0.543910801410675},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4745279848575592},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.47032010555267334},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.4521012306213379},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.43545907735824585},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.42717570066452026},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4269178807735443},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.419231116771698},{"id":"https://openalex.org/C85468374","wikidata":"https://www.wikidata.org/wiki/Q6589957","display_name":"Nucleic acid secondary structure","level":4,"score":0.41219067573547363},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.3646193742752075},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3263477683067322},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19373151659965515},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1701027750968933},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15882468223571777},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.13761109113693237},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3389/fbinf.2023.1275787","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2023.1275787","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1275787/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37881622","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37881622","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":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10597636","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10597636","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10597636/pdf/fbinf-03-1275787.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":"Front Bioinform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:2f2e9facca7f4dc8ac96b0b16b7df180","is_oa":true,"landing_page_url":"https://doaj.org/article/2f2e9facca7f4dc8ac96b0b16b7df180","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":"Frontiers in Bioinformatics, Vol 3 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2023.1275787","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2023.1275787","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1275787/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1347723027","display_name":null,"funder_award_id":"22H04891","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G1408967043","display_name":null,"funder_award_id":"JP22ama121055","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G342479731","display_name":"Platform for Advanced Genome Science","funder_award_id":"22H04925","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3736447691","display_name":null,"funder_award_id":"JP23K16997","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3909598355","display_name":null,"funder_award_id":"JP21ae0121049","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G4709092590","display_name":null,"funder_award_id":"JP22H04925","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G4727676461","display_name":null,"funder_award_id":"JP22H04891","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G5580601950","display_name":null,"funder_award_id":"JP21gm0010008","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G625466102","display_name":null,"funder_award_id":"JP20H00624","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G7669804585","display_name":"Elucidation of the function of long non-coding RNAs based on de novo discovery of repeat elements","funder_award_id":"20H00624","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G8018561174","display_name":"\u6df1\u5c64\u5b66\u7fd2\u3092\u7528\u3044\u305fRNA\u4e8c\u6b21\u69cb\u9020\u60c5\u5831\u89e3\u6790\u306e\u9ad8\u901f\u5316","funder_award_id":"23K16997","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320311405","display_name":"Japan Agency for Medical Research and Development","ror":"https://ror.org/004rtk039"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"},{"id":"https://openalex.org/F4320338065","display_name":"Institute of Genetics","ror":"https://ror.org/03gwhmn95"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4387500504.pdf"},"referenced_works_count":55,"referenced_works":["https://openalex.org/W89691187","https://openalex.org/W1537634146","https://openalex.org/W1901129140","https://openalex.org/W1965077482","https://openalex.org/W1984675364","https://openalex.org/W2041882488","https://openalex.org/W2042844155","https://openalex.org/W2059051300","https://openalex.org/W2073858449","https://openalex.org/W2086561953","https://openalex.org/W2098571862","https://openalex.org/W2101497682","https://openalex.org/W2102017611","https://openalex.org/W2104141342","https://openalex.org/W2108329085","https://openalex.org/W2111112766","https://openalex.org/W2132963003","https://openalex.org/W2134629862","https://openalex.org/W2142675139","https://openalex.org/W2146367778","https://openalex.org/W2151994495","https://openalex.org/W2165238410","https://openalex.org/W2345633170","https://openalex.org/W2395611524","https://openalex.org/W2596417560","https://openalex.org/W2609607459","https://openalex.org/W2610733803","https://openalex.org/W2892180666","https://openalex.org/W2896457183","https://openalex.org/W2903674301","https://openalex.org/W2954102902","https://openalex.org/W3033806858","https://openalex.org/W3035476925","https://openalex.org/W3038186741","https://openalex.org/W3100348855","https://openalex.org/W3111061871","https://openalex.org/W3126773939","https://openalex.org/W3128249532","https://openalex.org/W3148521828","https://openalex.org/W3161200675","https://openalex.org/W4213095938","https://openalex.org/W4286970725","https://openalex.org/W4293569212","https://openalex.org/W4293795761","https://openalex.org/W4300861274","https://openalex.org/W4307054535","https://openalex.org/W4307137870","https://openalex.org/W4319812133","https://openalex.org/W4378349624","https://openalex.org/W6632224712","https://openalex.org/W6639824700","https://openalex.org/W6640054144","https://openalex.org/W6739076403","https://openalex.org/W6780379829","https://openalex.org/W6801044219"],"related_works":["https://openalex.org/W2399513595","https://openalex.org/W4388386498","https://openalex.org/W2028462563","https://openalex.org/W2942994004","https://openalex.org/W2982720988","https://openalex.org/W3150324899","https://openalex.org/W2523545060","https://openalex.org/W4229998356","https://openalex.org/W3174925618","https://openalex.org/W2023978881"],"abstract_inverted_index":{"RNA":[0,5,46,59],"accessibility":[1,20,47,67,83,92],"is":[2],"a":[3,132],"useful":[4],"secondary":[6],"structural":[7],"feature":[8],"for":[9],"predicting":[10],"RNA-RNA":[11],"interactions":[12],"and":[13,29,63,76,138],"translation":[14],"efficiency":[15],"in":[16,106,131],"prokaryotes.":[17],"However,":[18],"conventional":[19],"calculation":[21],"tools,":[22],"such":[23],"as":[24,61,71],"Raccess,":[25],"are":[26,144],"computationally":[27],"expensive":[28],"require":[30],"considerable":[31],"computational":[32],"time":[33],"to":[34,56,64,125],"perform":[35],"transcriptome-scale":[36],"analysis.":[37],"In":[38,96],"this":[39],"study,":[40],"we":[41,98],"developed":[42],"DeepRaccess,":[43],"which":[44],"predicts":[45],"based":[48],"on":[49],"deep":[50],"learning":[51],"methods.":[52],"DeepRaccess":[53,86,101,122,143],"was":[54,87],"trained":[55,140],"take":[57],"artificial":[58],"sequences":[60,70,113],"input":[62],"predict":[65,103],"the":[66,82,91,112,115,139],"of":[68,127,142],"these":[69],"calculated":[72,93],"by":[73,85,94],"Raccess.":[74,95],"Simulation":[75],"empirical":[77],"dataset":[78],"analyses":[79],"showed":[80],"that":[81,100,121],"predicted":[84],"highly":[88],"correlated":[89],"with":[90,108],"addition,":[97],"confirmed":[99],"could":[102],"protein":[104],"abundance":[105],"E.coli":[107],"moderate":[109],"accuracy":[110],"from":[111],"around":[114],"start":[116],"codon.":[117],"We":[118],"also":[119],"demonstrated":[120],"achieved":[123],"tens":[124],"hundreds":[126],"times":[128],"software":[129],"speed-up":[130],"GPU":[133],"environment.":[134],"The":[135],"source":[136],"codes":[137],"models":[141],"freely":[145],"available":[146],"at":[147],"https://github.com/hmdlab/DeepRaccess":[148],".":[149]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}