{"id":"https://openalex.org/W4411090604","doi":"https://doi.org/10.1016/j.tcs.2025.115382","title":"pbn-STAC: Deep reinforcement learning-based framework for cellular reprogramming","display_name":"pbn-STAC: Deep reinforcement learning-based framework for cellular reprogramming","publication_year":2025,"publication_date":"2025-06-06","ids":{"openalex":"https://openalex.org/W4411090604","doi":"https://doi.org/10.1016/j.tcs.2025.115382"},"language":"en","primary_location":{"id":"doi:10.1016/j.tcs.2025.115382","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.tcs.2025.115382","pdf_url":null,"source":{"id":"https://openalex.org/S90727058","display_name":"Theoretical Computer Science","issn_l":"0304-3975","issn":["0304-3975","1879-2294"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Theoretical Computer Science","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1016/j.tcs.2025.115382","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5028832116","display_name":"Andrzej Mizera","orcid":"https://orcid.org/0000-0002-6351-2877"},"institutions":[{"id":"https://openalex.org/I4210166577","display_name":"Narodowy Instytut Lek\u00f3w","ror":"https://ror.org/05m2pwn60","country_code":"PL","type":"facility","lineage":["https://openalex.org/I4210166577"]},{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":true,"raw_author_name":"Andrzej Mizera","raw_affiliation_strings":["Faculty of Mathematics, Informatics, and Mechanics, University of Warsaw, Banacha 2, Warsaw, 02-097, Poland","IDEAS NCBR, Chmielna 69, Warsaw, 00-801, Poland"],"raw_orcid":"https://orcid.org/0000-0002-6351-2877","affiliations":[{"raw_affiliation_string":"Faculty of Mathematics, Informatics, and Mechanics, University of Warsaw, Banacha 2, Warsaw, 02-097, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"IDEAS NCBR, Chmielna 69, Warsaw, 00-801, Poland","institution_ids":["https://openalex.org/I4210166577"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037418245","display_name":"Jakub Zarzycki","orcid":null},"institutions":[{"id":"https://openalex.org/I4210166577","display_name":"Narodowy Instytut Lek\u00f3w","ror":"https://ror.org/05m2pwn60","country_code":"PL","type":"facility","lineage":["https://openalex.org/I4210166577"]},{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Jakub Zarzycki","raw_affiliation_strings":["Faculty of Mathematics, Informatics, and Mechanics, University of Warsaw, Banacha 2, Warsaw, 02-097, Poland","IDEAS NCBR, Chmielna 69, Warsaw, 00-801, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Mathematics, Informatics, and Mechanics, University of Warsaw, Banacha 2, Warsaw, 02-097, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"IDEAS NCBR, Chmielna 69, Warsaw, 00-801, Poland","institution_ids":["https://openalex.org/I4210166577"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5028832116"],"corresponding_institution_ids":["https://openalex.org/I4210166577","https://openalex.org/I4654613"],"apc_list":{"value":2690,"currency":"USD","value_usd":2690},"apc_paid":{"value":2690,"currency":"USD","value_usd":2690},"fwci":1.4227,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.81325083,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"1049","issue":null,"first_page":"115382","last_page":"115382"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10505","display_name":"Pluripotent Stem Cells Research","score":0.9965000152587891,"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/T10505","display_name":"Pluripotent Stem Cells Research","score":0.9965000152587891,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9959999918937683,"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/T11601","display_name":"Neuroscience and Neural Engineering","score":0.9878000020980835,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/reprogramming","display_name":"Reprogramming","score":0.7210167646408081},{"id":"https://openalex.org/keywords/reinforcement-learning","display_name":"Reinforcement learning","score":0.6994938254356384},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5661738514900208},{"id":"https://openalex.org/keywords/reinforcement","display_name":"Reinforcement","score":0.5515572428703308},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4914635419845581},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2336069941520691},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.11525106430053711},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.07389062643051147},{"id":"https://openalex.org/keywords/social-psychology","display_name":"Social psychology","score":0.06395241618156433}],"concepts":[{"id":"https://openalex.org/C77255625","wikidata":"https://www.wikidata.org/wiki/Q402093","display_name":"Reprogramming","level":3,"score":0.7210167646408081},{"id":"https://openalex.org/C97541855","wikidata":"https://www.wikidata.org/wiki/Q830687","display_name":"Reinforcement learning","level":2,"score":0.6994938254356384},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5661738514900208},{"id":"https://openalex.org/C67203356","wikidata":"https://www.wikidata.org/wiki/Q1321905","display_name":"Reinforcement","level":2,"score":0.5515572428703308},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4914635419845581},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2336069941520691},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.11525106430053711},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.07389062643051147},{"id":"https://openalex.org/C77805123","wikidata":"https://www.wikidata.org/wiki/Q161272","display_name":"Social psychology","level":1,"score":0.06395241618156433},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1016/j.tcs.2025.115382","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.tcs.2025.115382","pdf_url":null,"source":{"id":"https://openalex.org/S90727058","display_name":"Theoretical Computer Science","issn_l":"0304-3975","issn":["0304-3975","1879-2294"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Theoretical Computer Science","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1016/j.tcs.2025.115382","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.tcs.2025.115382","pdf_url":null,"source":{"id":"https://openalex.org/S90727058","display_name":"Theoretical Computer Science","issn_l":"0304-3975","issn":["0304-3975","1879-2294"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Theoretical Computer Science","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7044513223","display_name":null,"funder_award_id":"2023/51/I/ST6/02864","funder_id":"https://openalex.org/F4320322511","funder_display_name":"Narodowe Centrum Nauki"},{"id":"https://openalex.org/G7882125056","display_name":null,"funder_award_id":"UMO-2023/51/I/ST6/02864","funder_id":"https://openalex.org/F4320322511","funder_display_name":"Narodowe Centrum Nauki"}],"funders":[{"id":"https://openalex.org/F4320322511","display_name":"Narodowe Centrum Nauki","ror":"https://ror.org/03ha2q922"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":53,"referenced_works":["https://openalex.org/W32403112","https://openalex.org/W1557517019","https://openalex.org/W1651215666","https://openalex.org/W1967547048","https://openalex.org/W2019298863","https://openalex.org/W2053961182","https://openalex.org/W2062533676","https://openalex.org/W2072891907","https://openalex.org/W2114342401","https://openalex.org/W2132022337","https://openalex.org/W2134978629","https://openalex.org/W2141545875","https://openalex.org/W2145339207","https://openalex.org/W2155968351","https://openalex.org/W2160533336","https://openalex.org/W2746553466","https://openalex.org/W2769883686","https://openalex.org/W2885104303","https://openalex.org/W2898597444","https://openalex.org/W2904464772","https://openalex.org/W2945325666","https://openalex.org/W2989479001","https://openalex.org/W2997291740","https://openalex.org/W3024443204","https://openalex.org/W3034404538","https://openalex.org/W3081483388","https://openalex.org/W3090145530","https://openalex.org/W3097304354","https://openalex.org/W3104705084","https://openalex.org/W3106325891","https://openalex.org/W3148828413","https://openalex.org/W3160827055","https://openalex.org/W4281252259","https://openalex.org/W4288723302","https://openalex.org/W4313145618","https://openalex.org/W4386548905","https://openalex.org/W4386606432","https://openalex.org/W4393324946","https://openalex.org/W4404626164","https://openalex.org/W6677067356","https://openalex.org/W6681140096","https://openalex.org/W6685444567","https://openalex.org/W6690570109","https://openalex.org/W6746605513","https://openalex.org/W6757363298","https://openalex.org/W6767308769","https://openalex.org/W6770827051","https://openalex.org/W6777364250","https://openalex.org/W6779341607","https://openalex.org/W6779713445","https://openalex.org/W6783657778","https://openalex.org/W6786268598","https://openalex.org/W6863774351"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W1631979401","https://openalex.org/W2395945797","https://openalex.org/W1497716427","https://openalex.org/W2129470469","https://openalex.org/W2368295610","https://openalex.org/W1543102035","https://openalex.org/W2946692299"],"abstract_inverted_index":{"Cellular":[0],"reprogramming":[1,19,53,68],"can":[2],"be":[3],"used":[4],"for":[5,69,100,112],"both":[6],"the":[7,15,50,64,70,82,92,101,114],"prevention":[8],"and":[9,31,72,97],"cure":[10],"of":[11,17,52,66,77,94,103,123],"complex":[12],"diseases.":[13],"However,":[14],"efficiency":[16],"discovering":[18],"strategies":[20],"with":[21],"classical":[22],"wet-lab":[23],"experiments":[24],"is":[25],"hindered":[26],"by":[27],"lengthy":[28],"time":[29],"commitments":[30],"high":[32],"costs.":[33],"In":[34],"this":[35,56],"study,":[36],"we":[37,58,90,107,118],"leverage":[38],"deep":[39],"reinforcement":[40],"learning":[41],"to":[42,87],"develop":[43],"a":[44,60,95,98,109,121],"novel":[45],"computational":[46,110],"framework":[47,111],"that":[48],"facilitates":[49],"identification":[51,102],"strategies.":[54],"To":[55],"end,":[57],"formulate":[59],"control":[61,115],"problem":[62],"in":[63],"context":[65],"cellular":[67],"Boolean":[71,74],"probabilistic":[73],"network":[75],"models":[76],"gene":[78],"regulatory":[79],"networks":[80],"under":[81],"asynchronous":[83],"update":[84],"mode.":[85],"Furthermore,":[86],"facilitate":[88],"scalability,":[89],"introduce":[91],"notion":[93],"pseudo-attractor":[96,104],"procedure":[99],"states.":[105],"Finally,":[106],"devise":[108],"solving":[113],"problem,":[116],"which":[117],"test":[119],"on":[120],"number":[122],"biological":[124],"networks.":[125]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-01-20T17:24:06.736184","created_date":"2025-10-10T00:00:00"}
