{"id":"https://openalex.org/W4416731799","doi":"https://doi.org/10.1093/bioinformatics/btaf603","title":"Decoding cell fate: integrated experimental and computational analysis at the single-cell level","display_name":"Decoding cell fate: integrated experimental and computational analysis at the single-cell level","publication_year":2025,"publication_date":"2025-11-01","ids":{"openalex":"https://openalex.org/W4416731799","doi":"https://doi.org/10.1093/bioinformatics/btaf603","pmid":"https://pubmed.ncbi.nlm.nih.gov/41206131"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf603","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf603","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf603/65229518/btaf603.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf603/65229518/btaf603.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062933461","display_name":"Yutong Zhou","orcid":null},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yutong Zhou","raw_affiliation_strings":["Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110860664","display_name":"Shuyang Hou","orcid":"https://orcid.org/0009-0000-6984-9959"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuyang Hou","raw_affiliation_strings":["Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Xinhao Miao","orcid":null},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xinhao Miao","raw_affiliation_strings":["Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101846638","display_name":"Guangxin Zhang","orcid":null},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guangxin Zhang","raw_affiliation_strings":["Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073362320","display_name":"Zining Li","orcid":"https://orcid.org/0000-0002-6921-8417"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zining Li","raw_affiliation_strings":["Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrated Science Program, Yuanpei College, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091415408","display_name":"Di Zhang","orcid":"https://orcid.org/0000-0001-8760-1412"},"institutions":[{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Di Zhang","raw_affiliation_strings":["Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies , Chengdu, Sichuan, 610213,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies , Chengdu, Sichuan, 610213,","institution_ids":["https://openalex.org/I4210125143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076685104","display_name":"Yongjie Lin","orcid":"https://orcid.org/0000-0002-1045-0406"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]},{"id":"https://openalex.org/I4210160507","display_name":"Center for Life Sciences","ror":"https://ror.org/05kje8j93","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570","https://openalex.org/I4210160507","https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yongjie Lin","raw_affiliation_strings":["Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University , Beijing, 100871,","Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies , Chengdu, Sichuan, 610213,","The MOE Key Laboratory of Cell Proliferation and Differentiation, School of Life Sciences, Peking University , Beijing, 100871,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I4210160507"]},{"raw_affiliation_string":"Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies , Chengdu, Sichuan, 610213,","institution_ids":["https://openalex.org/I4210125143"]},{"raw_affiliation_string":"The MOE Key Laboratory of Cell Proliferation and Differentiation, School of Life Sciences, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027035037","display_name":"Yihan Lin","orcid":"https://orcid.org/0000-0002-2763-5538"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]},{"id":"https://openalex.org/I4210160507","display_name":"Center for Life Sciences","ror":"https://ror.org/05kje8j93","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570","https://openalex.org/I4210160507","https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yihan Lin","raw_affiliation_strings":["Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University , Beijing, 100871,","Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies , Chengdu, Sichuan, 610213,","The MOE Key Laboratory of Cell Proliferation and Differentiation, School of Life Sciences, Peking University , Beijing, 100871,"],"raw_orcid":"https://orcid.org/0000-0002-2763-5538","affiliations":[{"raw_affiliation_string":"Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I4210160507"]},{"raw_affiliation_string":"Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies , Chengdu, Sichuan, 610213,","institution_ids":["https://openalex.org/I4210125143"]},{"raw_affiliation_string":"The MOE Key Laboratory of Cell Proliferation and Differentiation, School of Life Sciences, Peking University , Beijing, 100871,","institution_ids":["https://openalex.org/I20231570"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.1519,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.81107674,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"41","issue":"11","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9153000116348267,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9153000116348267,"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":0.044599998742341995,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.00930000003427267,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/decoding-methods","display_name":"Decoding methods","score":0.7297999858856201},{"id":"https://openalex.org/keywords/work","display_name":"Work (physics)","score":0.40450000762939453},{"id":"https://openalex.org/keywords/computational-complexity-theory","display_name":"Computational complexity theory","score":0.36899998784065247},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.35600000619888306},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.30889999866485596}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7434999942779541},{"id":"https://openalex.org/C57273362","wikidata":"https://www.wikidata.org/wiki/Q576722","display_name":"Decoding methods","level":2,"score":0.7297999858856201},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5249000191688538},{"id":"https://openalex.org/C18762648","wikidata":"https://www.wikidata.org/wiki/Q42213","display_name":"Work (physics)","level":2,"score":0.40450000762939453},{"id":"https://openalex.org/C179799912","wikidata":"https://www.wikidata.org/wiki/Q205084","display_name":"Computational complexity theory","level":2,"score":0.36899998784065247},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.36079999804496765},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.35600000619888306},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.30889999866485596},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.29510000348091125},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2720000147819519},{"id":"https://openalex.org/C193969084","wikidata":"https://www.wikidata.org/wiki/Q7452500","display_name":"Sequential decoding","level":4,"score":0.26660001277923584},{"id":"https://openalex.org/C12426560","wikidata":"https://www.wikidata.org/wiki/Q189569","display_name":"Basis (linear algebra)","level":2,"score":0.2515000104904175}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"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":"D019070","descriptor_name":"Cell Lineage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019070","descriptor_name":"Cell Lineage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019070","descriptor_name":"Cell Lineage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btaf603","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf603","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf603/65229518/btaf603.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41206131","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41206131","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf603","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf603","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf603/65229518/btaf603.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1439617199","display_name":null,"funder_award_id":"QY23055","funder_id":"https://openalex.org/F4320322919","funder_display_name":"Natural Science Foundation of Beijing Municipality"},{"id":"https://openalex.org/G2644416759","display_name":null,"funder_award_id":"T2321001","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5455563334","display_name":null,"funder_award_id":"32088101","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6609414985","display_name":null,"funder_award_id":"T2325002","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322919","display_name":"Natural Science Foundation of Beijing Municipality","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4416731799.pdf","grobid_xml":"https://content.openalex.org/works/W4416731799.grobid-xml"},"referenced_works_count":263,"referenced_works":["https://openalex.org/W87643743","https://openalex.org/W144423133","https://openalex.org/W220770808","https://openalex.org/W1531821806","https://openalex.org/W1580018887","https://openalex.org/W1965863160","https://openalex.org/W1966327575","https://openalex.org/W1970779075","https://openalex.org/W1971224531","https://openalex.org/W1978031011","https://openalex.org/W1981509058","https://openalex.org/W1984883254","https://openalex.org/W2002189052","https://openalex.org/W2002458471","https://openalex.org/W2029991507","https://openalex.org/W2045362835","https://openalex.org/W2048438929","https://openalex.org/W2062029454","https://openalex.org/W2063854986","https://openalex.org/W2072319015","https://openalex.org/W2093050872","https://openalex.org/W2094902224","https://openalex.org/W2105970624","https://openalex.org/W2107680358","https://openalex.org/W2118430622","https://openalex.org/W2125987139","https://openalex.org/W2127403997","https://openalex.org/W2128114769","https://openalex.org/W2128940002","https://openalex.org/W2129288227","https://openalex.org/W2129957319","https://openalex.org/W2132278571","https://openalex.org/W2132980978","https://openalex.org/W2134427620","https://openalex.org/W2137088684","https://openalex.org/W2148944713","https://openalex.org/W2151611345","https://openalex.org/W2153824299","https://openalex.org/W2161409973","https://openalex.org/W2165247488","https://openalex.org/W2168221215","https://openalex.org/W2171111703","https://openalex.org/W2171280873","https://openalex.org/W2178888844","https://openalex.org/W2198371822","https://openalex.org/W2518828632","https://openalex.org/W2522895022","https://openalex.org/W2555892463","https://openalex.org/W2561754210","https://openalex.org/W2562443513","https://openalex.org/W2562947047","https://openalex.org/W2572662684","https://openalex.org/W2577994754","https://openalex.org/W2602000457","https://openalex.org/W2606796272","https://openalex.org/W2608738563","https://openalex.org/W2612467560","https://openalex.org/W2616922646","https://openalex.org/W2627064270","https://openalex.org/W2744040456","https://openalex.org/W2745719851","https://openalex.org/W2747263575","https://openalex.org/W2766437506","https://openalex.org/W2772692099","https://openalex.org/W2780236371","https://openalex.org/W2781886817","https://openalex.org/W2783571957","https://openalex.org/W2785329615","https://openalex.org/W2788263670","https://openalex.org/W2801820889","https://openalex.org/W2807587036","https://openalex.org/W2809368942","https://openalex.org/W2888009468","https://openalex.org/W2897249806","https://openalex.org/W2899224111","https://openalex.org/W2902451951","https://openalex.org/W2902990089","https://openalex.org/W2911279170","https://openalex.org/W2912390237","https://openalex.org/W2919115771","https://openalex.org/W2919475439","https://openalex.org/W2920191405","https://openalex.org/W2927507212","https://openalex.org/W2939422961","https://openalex.org/W2940521512","https://openalex.org/W2945730477","https://openalex.org/W2946741946","https://openalex.org/W2948469692","https://openalex.org/W2949177718","https://openalex.org/W2949490462","https://openalex.org/W2950195808","https://openalex.org/W2952383043","https://openalex.org/W2952582936","https://openalex.org/W2952840385","https://openalex.org/W2962751012","https://openalex.org/W2965552103","https://openalex.org/W2984472267","https://openalex.org/W2992924694","https://openalex.org/W2993905360","https://openalex.org/W3002219094","https://openalex.org/W3002417351","https://openalex.org/W3005039546","https://openalex.org/W3008278692","https://openalex.org/W3013151148","https://openalex.org/W3013900499","https://openalex.org/W3014807564","https://openalex.org/W3015748341","https://openalex.org/W3024554698","https://openalex.org/W3035650440","https://openalex.org/W3040976786","https://openalex.org/W3043086101","https://openalex.org/W3045872583","https://openalex.org/W3047141442","https://openalex.org/W3098132991","https://openalex.org/W3115880421","https://openalex.org/W3119507732","https://openalex.org/W3121536135","https://openalex.org/W3123518732","https://openalex.org/W3124814274","https://openalex.org/W3128290568","https://openalex.org/W3133712085","https://openalex.org/W3134444564","https://openalex.org/W3141751158","https://openalex.org/W3147595666","https://openalex.org/W3156830838","https://openalex.org/W3158694246","https://openalex.org/W3161116336","https://openalex.org/W3164267245","https://openalex.org/W3164448939","https://openalex.org/W3170265427","https://openalex.org/W3171133702","https://openalex.org/W3176766013","https://openalex.org/W3186667648","https://openalex.org/W3193419934","https://openalex.org/W3193433935","https://openalex.org/W3193992874","https://openalex.org/W3201237713","https://openalex.org/W3204708585","https://openalex.org/W4200227839","https://openalex.org/W4205206193","https://openalex.org/W4210575300","https://openalex.org/W4211123163","https://openalex.org/W4213269074","https://openalex.org/W4213289544","https://openalex.org/W4220765071","https://openalex.org/W4221085690","https://openalex.org/W4223608326","https://openalex.org/W4224278064","https://openalex.org/W4225598893","https://openalex.org/W4226034440","https://openalex.org/W4229016240","https://openalex.org/W4252782584","https://openalex.org/W4285005336","https://openalex.org/W4290989128","https://openalex.org/W4292121795","https://openalex.org/W4293023608","https://openalex.org/W4302010745","https://openalex.org/W4312114042","https://openalex.org/W4313545605","https://openalex.org/W4318959472","https://openalex.org/W4319591822","https://openalex.org/W4319759388","https://openalex.org/W4319827264","https://openalex.org/W4320004594","https://openalex.org/W4366685166","https://openalex.org/W4366742301","https://openalex.org/W4375955255","https://openalex.org/W4378212544","https://openalex.org/W4378838672","https://openalex.org/W4380869622","https://openalex.org/W4380989965","https://openalex.org/W4382022265","https://openalex.org/W4384198561","https://openalex.org/W4384561857","https://openalex.org/W4385350654","https://openalex.org/W4385515928","https://openalex.org/W4385638616","https://openalex.org/W4385760593","https://openalex.org/W4385955324","https://openalex.org/W4385958134","https://openalex.org/W4386167342","https://openalex.org/W4387012711","https://openalex.org/W4387130479","https://openalex.org/W4387268210","https://openalex.org/W4387358535","https://openalex.org/W4387473262","https://openalex.org/W4387709141","https://openalex.org/W4388217091","https://openalex.org/W4388424617","https://openalex.org/W4389166577","https://openalex.org/W4389390583","https://openalex.org/W4389498253","https://openalex.org/W4389628854","https://openalex.org/W4389684083","https://openalex.org/W4389850427","https://openalex.org/W4389858821","https://openalex.org/W4389942933","https://openalex.org/W4389992940","https://openalex.org/W4390340766","https://openalex.org/W4390880427","https://openalex.org/W4391100251","https://openalex.org/W4391234592","https://openalex.org/W4391262585","https://openalex.org/W4391637170","https://openalex.org/W4391643568","https://openalex.org/W4391825336","https://openalex.org/W4391899537","https://openalex.org/W4392094768","https://openalex.org/W4392168151","https://openalex.org/W4392198232","https://openalex.org/W4392303996","https://openalex.org/W4395482102","https://openalex.org/W4396671522","https://openalex.org/W4396703024","https://openalex.org/W4396895461","https://openalex.org/W4398231714","https://openalex.org/W4399387478","https://openalex.org/W4399390394","https://openalex.org/W4400140744","https://openalex.org/W4400455345","https://openalex.org/W4401455022","https://openalex.org/W4401455503","https://openalex.org/W4401475443","https://openalex.org/W4401650799","https://openalex.org/W4401736092","https://openalex.org/W4401736259","https://openalex.org/W4401864187","https://openalex.org/W4402295719","https://openalex.org/W4402324910","https://openalex.org/W4402770295","https://openalex.org/W4402860131","https://openalex.org/W4402926790","https://openalex.org/W4403243618","https://openalex.org/W4403405969","https://openalex.org/W4403609049","https://openalex.org/W4403921015","https://openalex.org/W4404051014","https://openalex.org/W4404162495","https://openalex.org/W4404905434","https://openalex.org/W4404907287","https://openalex.org/W4405375104","https://openalex.org/W4405425743","https://openalex.org/W4405688978","https://openalex.org/W4405735226","https://openalex.org/W4406195642","https://openalex.org/W4406473173","https://openalex.org/W4407272669","https://openalex.org/W4407956747","https://openalex.org/W4407978262","https://openalex.org/W4408150942","https://openalex.org/W4408363679","https://openalex.org/W4408609116","https://openalex.org/W4408899521","https://openalex.org/W4409040377","https://openalex.org/W4409283657","https://openalex.org/W4409566559","https://openalex.org/W4410702921","https://openalex.org/W4410866390","https://openalex.org/W4411619815","https://openalex.org/W4411690475","https://openalex.org/W4412623163","https://openalex.org/W4412929241","https://openalex.org/W4413276704"],"related_works":[],"abstract_inverted_index":{"MOTIVATION:":[0],"Understanding":[1],"cell":[2,55,71,111,121,156],"fate":[3,56,72,112,122],"determination":[4],"is":[5],"crucial":[6],"in":[7,60,133],"developmental":[8],"biology":[9],"and":[10,20,37,47,74,98,106,124,136,142,154,158,162],"regenerative":[11],"medicine.":[12],"Although":[13],"theoretical":[14],"frameworks":[15],"such":[16,92],"as":[17,93],"epigenetic":[18],"landscape":[19],"gene":[21],"regulatory":[22],"networks":[23],"have":[24,31,63],"been":[25,33],"proposed":[26],"for":[27,78,120],"decades,":[28],"traditional":[29],"studies":[30,123,151],"often":[32],"limited":[34],"by":[35],"population-averaging":[36],"low-throughput":[38],"techniques,":[39,100],"which":[40,101],"obscure":[41],"the":[42,68,76,117,127,138,166],"heterogeneity":[43],"of":[44,54,70,110,129,140,165],"individual":[45],"cells":[46],"fail":[48],"to":[49],"provide":[50],"a":[51],"systematic":[52],"view":[53],"control.":[57],"Recent":[58],"advances":[59],"single-cell":[61,94,141],"technologies":[62],"provided":[64],"unprecedented":[65],"resolution,":[66],"revealing":[67],"complexity":[69],"decisions":[73],"driving":[75],"need":[77],"more":[79],"sophisticated":[80],"computational":[81],"methods.":[82],"RESULTS:":[83],"In":[84],"this":[85],"review,":[86],"we":[87,147],"first":[88],"emphasize":[89],"experimental":[90],"advances,":[91],"multi-omics,":[95],"lineage":[96],"tracing,":[97],"perturbation":[99,134],"produce":[102],"novel":[103],"data":[104],"modalities":[105],"enable":[107],"dynamic":[108],"tracking":[109],"transitions.":[113],"We":[114],"then":[115],"discuss":[116,137,159],"modeling":[118,135],"paradigms":[119],"further":[125],"assess":[126],"role":[128],"emerging":[130],"AI":[131],"tools":[132],"potential":[139],"spatial":[143],"foundation":[144],"models.":[145],"Additionally,":[146],"highlight":[148],"several":[149],"case":[150],"on":[152],"predicting":[153],"manipulating":[155],"fates,":[157],"key":[160],"challenges":[161],"future":[163],"directions":[164],"field.":[167],"AVAILABILITY":[168],"AND":[169],"IMPLEMENTATION:":[170],"This":[171],"work":[172],"generates":[173],"no":[174],"new":[175],"software.":[176]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-11-09T00:00:00"}
