{"id":"https://openalex.org/W4412157335","doi":"https://doi.org/10.1093/bib/bbaf286","title":"Advancing genetic engineering with active learning: theory, implementations and potential opportunities","display_name":"Advancing genetic engineering with active learning: theory, implementations and potential opportunities","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4412157335","doi":"https://doi.org/10.1093/bib/bbaf286","pmid":"https://pubmed.ncbi.nlm.nih.gov/40627682"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf286","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf286","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbaf286","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101774809","display_name":"Qixiu Du","orcid":"https://orcid.org/0009-0008-8351-618X"},"institutions":[{"id":"https://openalex.org/I4210156423","display_name":"National Engineering Research Center for Information Technology in Agriculture","ror":"https://ror.org/04c3j3t84","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210156423"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qixiu Du","raw_affiliation_strings":["Department of Automation, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Ministry of Education Key Laboratory of Bioinformatics , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Tsinghua University , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","Ministry of Education Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"Department of Automation, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Bioinformatics , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I4210156423"]},{"raw_affiliation_string":"Tsinghua University , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100645299","display_name":"Haochen Wang","orcid":"https://orcid.org/0000-0003-1191-6682"},"institutions":[{"id":"https://openalex.org/I4210156423","display_name":"National Engineering Research Center for Information Technology in Agriculture","ror":"https://ror.org/04c3j3t84","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210156423"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haochen Wang","raw_affiliation_strings":["Department of Automation, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Ministry of Education Key Laboratory of Bioinformatics , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Tsinghua University , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","Ministry of Education Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"Department of Automation, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Bioinformatics , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I4210156423"]},{"raw_affiliation_string":"Tsinghua University , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038268580","display_name":"Benben Jiang","orcid":"https://orcid.org/0000-0003-1288-3798"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Benben Jiang","raw_affiliation_strings":["Department of Automation, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"Department of Automation, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5008093795","display_name":"Xiaowo Wang","orcid":"https://orcid.org/0000-0003-2965-8036"},"institutions":[{"id":"https://openalex.org/I4210156423","display_name":"National Engineering Research Center for Information Technology in Agriculture","ror":"https://ror.org/04c3j3t84","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210156423"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaowo Wang","raw_affiliation_strings":["College of Artificial Intelligence, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Department of Automation , Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084,","Ministry of Education Key Laboratory of Bioinformatics , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","Tsinghua University , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","College of Artificial Intelligence, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","Ministry of Education Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"College of Artificial Intelligence, Tsinghua University , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Automation , Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Bioinformatics , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I4210156423"]},{"raw_affiliation_string":"Tsinghua University , Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, , No. 1 Qinghuayuan Street, Haidian District, Beijing 100084 ,","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"College of Artificial Intelligence, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Automation, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Beijing National Research Center for Information Science and Technology, Tsinghua University, No. 1 Qinghuayuan Street, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5101774809"],"corresponding_institution_ids":["https://openalex.org/I4210156423","https://openalex.org/I99065089"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.988,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.86524533,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"26","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13280","display_name":"Biomedical and Engineering Education","score":0.9944999814033508,"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"}},"topics":[{"id":"https://openalex.org/T13280","display_name":"Biomedical and Engineering Education","score":0.9944999814033508,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9261999726295471,"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/implementation","display_name":"Implementation","score":0.858887791633606},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6378711462020874},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.3945273756980896},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3620724081993103},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3552662134170532},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.34434807300567627},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21353745460510254}],"concepts":[{"id":"https://openalex.org/C26713055","wikidata":"https://www.wikidata.org/wiki/Q245962","display_name":"Implementation","level":2,"score":0.858887791633606},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6378711462020874},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.3945273756980896},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3620724081993103},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3552662134170532},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.34434807300567627},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21353745460510254}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018794","descriptor_name":"Problem-Based Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018794","descriptor_name":"Problem-Based Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018794","descriptor_name":"Problem-Based Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf286","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf286","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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:40627682","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40627682","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:12236445","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12236445","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"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/bbaf286","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf286","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2120447654","https://openalex.org/W2977179488","https://openalex.org/W2144453115","https://openalex.org/W2744553356","https://openalex.org/W2128223750","https://openalex.org/W4238532390","https://openalex.org/W2188872161","https://openalex.org/W2961779879","https://openalex.org/W797688974","https://openalex.org/W2002978035"],"abstract_inverted_index":{"Employing":[0],"machine":[1],"learning":[2,45],"(ML)":[3],"models":[4],"to":[5,24],"accelerate":[6],"experimentation":[7],"and":[8,28,39,79,112,121],"uncover":[9],"biological":[10],"mechanisms":[11],"has":[12],"been":[13],"a":[14],"rising":[15],"tendency":[16],"in":[17],"genetic":[18,93],"engineering.":[19],"However,":[20],"effectively":[21],"collecting":[22],"data":[23,35],"enhance":[25],"model":[26,60],"accuracy":[27],"improve":[29],"design":[30],"remains":[31],"challenging,":[32],"especially":[33],"when":[34],"quality":[36],"is":[37],"poor":[38],"validation":[40],"resources":[41],"are":[42],"limited.":[43],"Active":[44],"(AL)":[46],"addresses":[47],"this":[48],"by":[49,96],"iteratively":[50],"identifying":[51],"promising":[52],"candidates,":[53],"thereby":[54],"reducing":[55],"experimental":[56],"efforts":[57],"while":[58,118],"improving":[59],"performance.":[61],"This":[62],"review":[63],"highlights":[64],"how":[65],"AL":[66,100],"can":[67],"assist":[68],"scientists":[69],"throughout":[70],"the":[71,84,90,108],"design-build-test-learn":[72],"cycle,":[73],"explore":[74],"its":[75,81],"various":[76],"practical":[77],"implementations,":[78],"discuss":[80],"potential":[82],"through":[83],"integration":[85],"of":[86,92,110],"cross-domain":[87],"expertise.":[88],"In":[89],"age":[91],"engineering":[94],"revolutionized":[95],"data-driven":[97],"ML":[98],"models,":[99],"presents":[101],"an":[102],"iterative":[103],"framework":[104],"that":[105],"significantly":[106],"enhances":[107],"functionalities":[109],"biomolecules":[111],"uncovers":[113],"their":[114],"intrinsic":[115],"mechanisms,":[116],"all":[117],"minimizing":[119],"expenses":[120],"efforts.":[122]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1}],"updated_date":"2026-04-02T15:55:50.835912","created_date":"2025-10-10T00:00:00"}
