{"id":"https://openalex.org/W2999719567","doi":"https://doi.org/10.1093/bioinformatics/btz963","title":"DeepSimulator1.5: a more powerful, quicker and lighter simulator for Nanopore sequencing","display_name":"DeepSimulator1.5: a more powerful, quicker and lighter simulator for Nanopore sequencing","publication_year":2020,"publication_date":"2020-01-03","ids":{"openalex":"https://openalex.org/W2999719567","doi":"https://doi.org/10.1093/bioinformatics/btz963","mag":"2999719567","pmid":"https://pubmed.ncbi.nlm.nih.gov/31913436"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz963","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz963","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/8/2578/33116884/btz963.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"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/bioinformatics/article-pdf/36/8/2578/33116884/btz963.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100345753","display_name":"Yu Li","orcid":"https://orcid.org/0000-0002-3664-6722"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Yu Li","raw_affiliation_strings":["Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia"],"raw_orcid":"https://orcid.org/0000-0002-3664-6722","affiliations":[{"raw_affiliation_string":"Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100371324","display_name":"Sheng Wang","orcid":"https://orcid.org/0000-0003-4210-1670"},"institutions":[{"id":"https://openalex.org/I2250653659","display_name":"Tencent (China)","ror":"https://ror.org/00hhjss72","country_code":"CN","type":"company","lineage":["https://openalex.org/I2250653659"]},{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["CN","SA"],"is_corresponding":true,"raw_author_name":"Sheng Wang","raw_affiliation_strings":["Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia","Tencent AI lab , Shenzhen 518000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Tencent AI lab , Shenzhen 518000, China","institution_ids":["https://openalex.org/I2250653659"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057221853","display_name":"Chongwei Bi","orcid":"https://orcid.org/0000-0003-2108-1551"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Chongwei Bi","raw_affiliation_strings":["Biological and Environmental Sciences and Engineering (BESE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Sciences and Engineering (BESE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035186284","display_name":"Zhaowen Qiu","orcid":"https://orcid.org/0000-0001-5292-0333"},"institutions":[{"id":"https://openalex.org/I47689461","display_name":"Northeast Forestry University","ror":"https://ror.org/02yxnh564","country_code":"CN","type":"education","lineage":["https://openalex.org/I47689461"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhaowen Qiu","raw_affiliation_strings":["Institute of Information and Computer Engineering, Northeast Forestry University , Harbin 150040, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Information and Computer Engineering, Northeast Forestry University , Harbin 150040, China","institution_ids":["https://openalex.org/I47689461"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100361471","display_name":"Mo Li","orcid":"https://orcid.org/0000-0003-0827-8907"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Mo Li","raw_affiliation_strings":["Biological and Environmental Sciences and Engineering (BESE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Sciences and Engineering (BESE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100618900","display_name":"Xin Gao","orcid":"https://orcid.org/0000-0002-7108-3574"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":true,"raw_author_name":"Xin Gao","raw_affiliation_strings":["Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100371324","https://openalex.org/A5100618900"],"corresponding_institution_ids":["https://openalex.org/I2250653659","https://openalex.org/I71920554"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":3.6675,"has_fulltext":false,"cited_by_count":65,"citation_normalized_percentile":{"value":0.94171075,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"36","issue":"8","first_page":"2578","last_page":"2580"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.7146000266075134,"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":0.7146000266075134,"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/T11582","display_name":"Nanopore and Nanochannel Transport Studies","score":0.23520000278949738,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11231","display_name":"Microbial Fuel Cells and Bioremediation","score":0.004100000020116568,"subfield":{"id":"https://openalex.org/subfields/2305","display_name":"Environmental Engineering"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7848395109176636},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6410741806030273},{"id":"https://openalex.org/keywords/nanopore","display_name":"Nanopore","score":0.6074312329292297},{"id":"https://openalex.org/keywords/nanopore-sequencing","display_name":"Nanopore sequencing","score":0.544740617275238},{"id":"https://openalex.org/keywords/generator","display_name":"Generator (circuit theory)","score":0.5410053133964539},{"id":"https://openalex.org/keywords/filter","display_name":"Filter (signal processing)","score":0.45624393224716187},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.42593610286712646},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.42549264430999756},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.34498414397239685},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.20119988918304443},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.19634979963302612},{"id":"https://openalex.org/keywords/power","display_name":"Power (physics)","score":0.10688397288322449},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.10597878694534302}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7848395109176636},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6410741806030273},{"id":"https://openalex.org/C141795571","wikidata":"https://www.wikidata.org/wiki/Q580942","display_name":"Nanopore","level":2,"score":0.6074312329292297},{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.544740617275238},{"id":"https://openalex.org/C2780992000","wikidata":"https://www.wikidata.org/wiki/Q17016113","display_name":"Generator (circuit theory)","level":3,"score":0.5410053133964539},{"id":"https://openalex.org/C106131492","wikidata":"https://www.wikidata.org/wiki/Q3072260","display_name":"Filter (signal processing)","level":2,"score":0.45624393224716187},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.42593610286712646},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.42549264430999756},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.34498414397239685},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.20119988918304443},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.19634979963302612},{"id":"https://openalex.org/C163258240","wikidata":"https://www.wikidata.org/wiki/Q25342","display_name":"Power (physics)","level":2,"score":0.10688397288322449},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.10597878694534302},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C171250308","wikidata":"https://www.wikidata.org/wiki/Q11468","display_name":"Nanotechnology","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081414","descriptor_name":"Nanopore Sequencing","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btz963","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz963","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/8/2578/33116884/btz963.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31913436","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31913436","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:pubmedcentral.nih.gov:7178411","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7178411","pdf_url":null,"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":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:repository.kaust.edu.sa:10754/661086","is_oa":true,"landing_page_url":"http://hdl.handle.net/10754/661086","pdf_url":null,"source":{"id":"https://openalex.org/S4306401596","display_name":"King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71920554","host_organization_name":"King Abdullah University of Science and Technology","host_organization_lineage":["https://openalex.org/I71920554"],"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":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz963","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz963","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/8/2578/33116884/btz963.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1442573568","display_name":null,"funder_award_id":"URF/1/3450-01-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G2185879301","display_name":null,"funder_award_id":"FCC/1/1976-26-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G2702908835","display_name":null,"funder_award_id":"FCC/1/1976-23-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G3847064998","display_name":null,"funder_award_id":"FCS/1/4102-02-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G7739191700","display_name":null,"funder_award_id":"FCC/1/1976-25-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G8069041701","display_name":null,"funder_award_id":"FCC/1/1976-18-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G8519533326","display_name":null,"funder_award_id":"URF/1/3412-01-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320322320","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2999719567.pdf"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W2002723386","https://openalex.org/W2524852834","https://openalex.org/W2537227711","https://openalex.org/W2611922188","https://openalex.org/W2792035812","https://openalex.org/W2891691532","https://openalex.org/W2901463181","https://openalex.org/W2912664120","https://openalex.org/W2915583118","https://openalex.org/W2948863695","https://openalex.org/W2949348780","https://openalex.org/W2949585453","https://openalex.org/W2950266744","https://openalex.org/W2950396894","https://openalex.org/W2950609999","https://openalex.org/W2980045019","https://openalex.org/W2982552606","https://openalex.org/W6727660531"],"related_works":["https://openalex.org/W2774675543","https://openalex.org/W2119052929","https://openalex.org/W2326282944","https://openalex.org/W2330402197","https://openalex.org/W2420153309","https://openalex.org/W3201371206","https://openalex.org/W3175842380","https://openalex.org/W2096970964","https://openalex.org/W2107323267","https://openalex.org/W2589591413"],"abstract_inverted_index":{"MOTIVATION:":[0],"Nanopore":[1,27,41,79],"sequencing":[2,9,42,80],"is":[3,36,90,142,158],"one":[4,149],"of":[5,13,25,108,137,145],"the":[6,21,26,37,46,51,63,66,71,78,118,123,130,138,143,153,162,169,175,185,190,194,197,243],"leading":[7],"third-generation":[8],"technologies.":[10],"A":[11],"number":[12],"computational":[14],"tools":[15],"have":[16,31,110,221],"been":[17,111,222],"developed":[18,32],"to":[19,43,93,96,128,167,174,183,214,224],"facilitate":[20],"processing":[22],"and":[23,50,70,207,218,231,242],"analysis":[24],"data.":[28],"Previously,":[29],"we":[30,121,147,178,192],"DeepSimulator1.0":[33],"(DS1.0),":[34],"which":[35,109,141,157,202],"first":[38],"simulator":[39,233],"for":[40,60,117,196],"produce":[44,57],"both":[45,205],"raw":[47,68],"electrical":[48],"signals":[49,69,73,171],"reads.":[52],"However,":[53],"although":[54],"DS1.0":[55,86,95],"can":[56,74,203],"high-quality":[58],"reads,":[59],"some":[61],"sequences,":[62],"divergence":[64],"between":[65],"simulated":[67],"real":[72,132,176],"be":[75],"large.":[76],"Furthermore,":[77,166],"technology":[81],"has":[82],"evolved":[83],"greatly":[84],"since":[85],"was":[87],"released.":[88],"It":[89],"thus":[91],"necessary":[92],"update":[94],"accommodate":[97],"those":[98],"changes.":[99],"RESULTS:":[100],"We":[101],"propose":[102],"DeepSimulator1.5":[103],"(DS1.5),":[104],"all":[105],"three":[106],"modules":[107],"updated":[112,122],"substantially":[113],"from":[114],"DS1.0.":[115,235],"As":[116],"sequence":[119],"generator,":[120,140],"sample":[124],"read":[125],"length":[126],"distribution":[127],"reflect":[129],"newest":[131,198],"reads'":[133],"features.":[134],"In":[135,209],"terms":[136],"signal":[139],"core":[144],"DeepSimulator,":[146],"added":[148,179,193],"more":[150,172,229],"pore":[151,155,186],"model,":[152,156],"context-independent":[154],"much":[159,228],"faster":[160],"than":[161,234],"previous":[163],"context-dependent":[164],"one.":[165],"make":[168,225],"generated":[170],"similar":[173],"ones,":[177],"a":[180,227],"low-pass":[181],"filter":[182],"post-process":[184],"model":[187],"signals.":[188],"Regarding":[189],"basecaller,":[191,200],"support":[195,204],"official":[199],"Guppy,":[201],"GPU":[206],"CPU.":[208],"addition,":[210],"multiple":[211],"optimizations,":[212],"related":[213],"multiprocessing":[215],"control,":[216],"memory":[217],"storage":[219],"management,":[220],"implemented":[223],"DS1.5":[226],"amenable":[230],"lighter":[232],"AVAILABILITY":[236],"AND":[237],"IMPLEMENTATION:":[238],"The":[239],"main":[240],"program":[241],"data":[244,252],"are":[245,253],"available":[246,254],"at":[247,255],"https://github.com/lykaust15/DeepSimulator.":[248],"SUPPLEMENTARY":[249],"INFORMATION:":[250],"Supplementary":[251],"Bioinformatics":[256],"online.":[257]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":12},{"year":2023,"cited_by_count":12},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":12},{"year":2020,"cited_by_count":13}],"updated_date":"2026-05-22T06:13:13.366637","created_date":"2025-10-10T00:00:00"}
