{"id":"https://openalex.org/W2912135067","doi":"https://doi.org/10.1109/bibm.2018.8621140","title":"DeepDNA: a hybrid convolutional and recurrent neural network for compressing human mitochondrial genomes","display_name":"DeepDNA: a hybrid convolutional and recurrent neural network for compressing human mitochondrial genomes","publication_year":2018,"publication_date":"2018-12-01","ids":{"openalex":"https://openalex.org/W2912135067","doi":"https://doi.org/10.1109/bibm.2018.8621140","mag":"2912135067"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2018.8621140","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2018.8621140","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102004676","display_name":"Rongjie Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Rongjie Wang","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100762645","display_name":"Yang Bai","orcid":"https://orcid.org/0000-0002-7175-2387"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Bai","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084027077","display_name":"Yanshuo Chu","orcid":"https://orcid.org/0000-0002-4188-782X"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan-Shuo Chu","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058599864","display_name":"Zhenxing Wang","orcid":"https://orcid.org/0000-0001-7020-5202"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhenxing Wang","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101577163","display_name":"Yongtian Wang","orcid":"https://orcid.org/0000-0003-2766-3106"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yongtian Wang","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101459398","display_name":"Mingrui Sun","orcid":"https://orcid.org/0000-0001-6169-2934"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Mingrui Sun","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100363203","display_name":"Junyi Li","orcid":"https://orcid.org/0000-0001-8045-5264"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junyi Li","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084159324","display_name":"Tianyi Zang","orcid":"https://orcid.org/0000-0003-0195-8731"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tianyi Zang","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100392449","display_name":"Yadong Wang","orcid":"https://orcid.org/0000-0001-9627-4492"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yadong Wang","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5102004676"],"corresponding_institution_ids":["https://openalex.org/I204983213"],"apc_list":null,"apc_paid":null,"fwci":0.5515,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.66529274,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"270","last_page":"274"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9955999851226807,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9955999851226807,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9948999881744385,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9940999746322632,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/computer-science","display_name":"Computer science","score":0.7808771133422852},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6961277723312378},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6744189262390137},{"id":"https://openalex.org/keywords/data-compression","display_name":"Data compression","score":0.5441249012947083},{"id":"https://openalex.org/keywords/recurrent-neural-network","display_name":"Recurrent neural network","score":0.542343020439148},{"id":"https://openalex.org/keywords/human-genome","display_name":"Human genome","score":0.5297530889511108},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.47358113527297974},{"id":"https://openalex.org/keywords/convolutional-code","display_name":"Convolutional code","score":0.4340308904647827},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.41446250677108765},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.41183674335479736},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40374088287353516},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3228394687175751},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.31668391823768616},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.31055960059165955},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.222962886095047},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.18202275037765503},{"id":"https://openalex.org/keywords/decoding-methods","display_name":"Decoding methods","score":0.14474567770957947},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13535034656524658},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11993977427482605}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7808771133422852},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6961277723312378},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6744189262390137},{"id":"https://openalex.org/C78548338","wikidata":"https://www.wikidata.org/wiki/Q2493","display_name":"Data compression","level":2,"score":0.5441249012947083},{"id":"https://openalex.org/C147168706","wikidata":"https://www.wikidata.org/wiki/Q1457734","display_name":"Recurrent neural network","level":3,"score":0.542343020439148},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.5297530889511108},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.47358113527297974},{"id":"https://openalex.org/C157899210","wikidata":"https://www.wikidata.org/wiki/Q1395022","display_name":"Convolutional code","level":3,"score":0.4340308904647827},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.41446250677108765},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.41183674335479736},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40374088287353516},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3228394687175751},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.31668391823768616},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.31055960059165955},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.222962886095047},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.18202275037765503},{"id":"https://openalex.org/C57273362","wikidata":"https://www.wikidata.org/wiki/Q576722","display_name":"Decoding methods","level":2,"score":0.14474567770957947},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13535034656524658},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11993977427482605},{"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/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm.2018.8621140","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2018.8621140","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.41999998688697815}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":28,"referenced_works":["https://openalex.org/W1499198785","https://openalex.org/W1510807444","https://openalex.org/W1514535095","https://openalex.org/W1580101844","https://openalex.org/W1600744878","https://openalex.org/W1665214252","https://openalex.org/W1970231722","https://openalex.org/W1977308882","https://openalex.org/W1995875735","https://openalex.org/W2003574027","https://openalex.org/W2015292449","https://openalex.org/W2016060560","https://openalex.org/W2064675550","https://openalex.org/W2094395530","https://openalex.org/W2108278098","https://openalex.org/W2114853176","https://openalex.org/W2145091349","https://openalex.org/W2146028503","https://openalex.org/W2152175008","https://openalex.org/W2152751895","https://openalex.org/W2158678815","https://openalex.org/W2164948864","https://openalex.org/W2284289336","https://openalex.org/W4320573464","https://openalex.org/W6630503602","https://openalex.org/W6630875275","https://openalex.org/W6637242042","https://openalex.org/W6695662000"],"related_works":["https://openalex.org/W4225394202","https://openalex.org/W4298287631","https://openalex.org/W2953061907","https://openalex.org/W1847088711","https://openalex.org/W3036642985","https://openalex.org/W3032952384","https://openalex.org/W2610189143","https://openalex.org/W2012254260","https://openalex.org/W2364503270","https://openalex.org/W2409743480"],"abstract_inverted_index":{"Large":[0],"amounts":[1],"of":[2,111],"genome":[3,37,69,106],"data":[4,25,38,45],"are":[5],"publicly":[6],"available":[7,119],"due":[8],"to":[9],"the":[10,72,75,79,84,92,97,109,112],"high-throughput":[11],"sequencing":[12],"technologies":[13],"developed":[14],"in":[15,43,96],"recent":[16],"years.":[17],"This":[18],"availability":[19],"raises":[20],"a":[21,52,58],"major":[22],"concern":[23],"about":[24],"storage":[26],"costs,":[27],"given":[28],"that":[29,56],"an":[30,40],"effective":[31],"and":[32,61],"efficient":[33],"compression":[34,53],"algorithm":[35],"for":[36,66,90,116],"remains":[39],"unresolved":[41],"challenge":[42],"genomic":[44,98],"studies.":[46],"In":[47,71],"this":[48],"paper,":[49],"we":[50],"propose":[51],"method,":[54],"DeepDNA,":[55],"is":[57,118],"hybrid":[59],"convolutional":[60,76],"recurrent":[62,85],"deep":[63],"neural":[64],"network":[65],"compressing":[67],"human":[68,104],"data.":[70],"DeepDNA":[73,113,117],"model,":[74],"layer":[77,86],"captures":[78,87],"genome's":[80],"local":[81],"features,":[82],"while":[83],"long-term":[88],"dependencies":[89],"estimating":[91],"next":[93],"base":[94],"probabilities":[95],"sequence.":[99],"The":[100],"experimental":[101],"results":[102],"on":[103],"mitochondrial":[105],"datasets":[107],"show":[108],"effectiveness":[110],"method.The":[114],"code":[115],"at":[120],"https://github.com/rongiiewang/deepDNA.":[121]},"counts_by_year":[{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}