{"id":"https://openalex.org/W4389166577","doi":"https://doi.org/10.1038/s42256-023-00763-w","title":"Reconstructing growth and dynamic trajectories from single-cell transcriptomics data","display_name":"Reconstructing growth and dynamic trajectories from single-cell transcriptomics data","publication_year":2023,"publication_date":"2023-11-30","ids":{"openalex":"https://openalex.org/W4389166577","doi":"https://doi.org/10.1038/s42256-023-00763-w","pmid":"https://pubmed.ncbi.nlm.nih.gov/38274364"},"language":"en","primary_location":{"id":"doi:10.1038/s42256-023-00763-w","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-023-00763-w","pdf_url":"https://www.nature.com/articles/s42256-023-00763-w.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.nature.com/articles/s42256-023-00763-w.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051434355","display_name":"Yutong Sha","orcid":"https://orcid.org/0000-0001-5530-734X"},"institutions":[{"id":"https://openalex.org/I204250578","display_name":"University of California, Irvine","ror":"https://ror.org/04gyf1771","country_code":"US","type":"education","lineage":["https://openalex.org/I204250578"]},{"id":"https://openalex.org/I4210140791","display_name":"Irvine University","ror":"https://ror.org/04ysmca02","country_code":"US","type":"education","lineage":["https://openalex.org/I4210140791"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yutong Sha","raw_affiliation_strings":["Department of Mathematics, University of California, Irvine, Irvine, CA USA","Department of Mathematics, University of California, Irvine, Irvine, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, University of California, Irvine, Irvine, CA USA","institution_ids":["https://openalex.org/I4210140791","https://openalex.org/I204250578"]},{"raw_affiliation_string":"Department of Mathematics, University of California, Irvine, Irvine, CA, USA","institution_ids":["https://openalex.org/I204250578"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073056717","display_name":"Yuchi Qiu","orcid":"https://orcid.org/0000-0002-7058-6428"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuchi Qiu","raw_affiliation_strings":["Department of Mathematics, Michigan State University, East Lansing, MI USA","Department of Mathematics, Michigan State University, East Lansing, MI, USA"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Michigan State University, East Lansing, MI USA","institution_ids":["https://openalex.org/I87216513"]},{"raw_affiliation_string":"Department of Mathematics, Michigan State University, East Lansing, MI, USA","institution_ids":["https://openalex.org/I87216513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072894189","display_name":"Peijie Zhou","orcid":"https://orcid.org/0000-0002-4585-2923"},"institutions":[{"id":"https://openalex.org/I204250578","display_name":"University of California, Irvine","ror":"https://ror.org/04gyf1771","country_code":"US","type":"education","lineage":["https://openalex.org/I204250578"]},{"id":"https://openalex.org/I4210140791","display_name":"Irvine University","ror":"https://ror.org/04ysmca02","country_code":"US","type":"education","lineage":["https://openalex.org/I4210140791"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peijie Zhou","raw_affiliation_strings":["Department of Mathematics, University of California, Irvine, Irvine, CA USA","Department of Mathematics, University of California, Irvine, Irvine, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, University of California, Irvine, Irvine, CA USA","institution_ids":["https://openalex.org/I4210140791","https://openalex.org/I204250578"]},{"raw_affiliation_string":"Department of Mathematics, University of California, Irvine, Irvine, CA, USA","institution_ids":["https://openalex.org/I204250578"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076311980","display_name":"Qing Nie","orcid":"https://orcid.org/0000-0002-8804-3368"},"institutions":[{"id":"https://openalex.org/I204250578","display_name":"University of California, Irvine","ror":"https://ror.org/04gyf1771","country_code":"US","type":"education","lineage":["https://openalex.org/I204250578"]},{"id":"https://openalex.org/I4210140791","display_name":"Irvine University","ror":"https://ror.org/04ysmca02","country_code":"US","type":"education","lineage":["https://openalex.org/I4210140791"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Qing Nie","raw_affiliation_strings":["Department of Developmental and Cell Biology, University of California, Irvine, Irvine, CA USA","Department of Mathematics, University of California, Irvine, Irvine, CA USA","The NSF-Simons Center for Multiscale Cell Fate Research, University of California, Irvine, Irvine, CA USA","Department of Developmental and Cell Biology, University of California, Irvine, Irvine, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Developmental and Cell Biology, University of California, Irvine, Irvine, CA USA","institution_ids":["https://openalex.org/I204250578"]},{"raw_affiliation_string":"Department of Mathematics, University of California, Irvine, Irvine, CA USA","institution_ids":["https://openalex.org/I4210140791","https://openalex.org/I204250578"]},{"raw_affiliation_string":"The NSF-Simons Center for Multiscale Cell Fate Research, University of California, Irvine, Irvine, CA USA","institution_ids":["https://openalex.org/I204250578"]},{"raw_affiliation_string":"Department of Developmental and Cell Biology, University of California, Irvine, Irvine, CA, USA","institution_ids":["https://openalex.org/I204250578"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5076311980"],"corresponding_institution_ids":["https://openalex.org/I204250578","https://openalex.org/I4210140791"],"apc_list":{"value":9750,"currency":"EUR","value_usd":11690},"apc_paid":{"value":9750,"currency":"EUR","value_usd":11690},"fwci":13.6544,"has_fulltext":true,"cited_by_count":90,"citation_normalized_percentile":{"value":0.9927968,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"6","issue":"1","first_page":"25","last_page":"39"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"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":1.0,"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":0.9962000250816345,"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/T10604","display_name":"RNA Research and Splicing","score":0.9635000228881836,"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/inference","display_name":"Inference","score":0.7645736336708069},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6629241108894348},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.6450963020324707},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5449652671813965},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4665125906467438},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3651661276817322},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3281845152378082},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20669052004814148},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.1873510777950287},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17281627655029297}],"concepts":[{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.7645736336708069},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6629241108894348},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.6450963020324707},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5449652671813965},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4665125906467438},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3651661276817322},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3281845152378082},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20669052004814148},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.1873510777950287},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17281627655029297},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1038/s42256-023-00763-w","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-023-00763-w","pdf_url":"https://www.nature.com/articles/s42256-023-00763-w.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},{"id":"pmid:38274364","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38274364","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":"Nature machine intelligence","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10805654","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10805654","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10805654/pdf/42256_2023_Article_763.pdf","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":"Nat Mach Intell","raw_type":"Text"},{"id":"pmh:ark:/13030/qt5798b2sn","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt5798b2sn","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/5798b2sn","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"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":"Nature Machine Intelligence, vol 6, iss 1","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1038/s42256-023-00763-w","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-023-00763-w","pdf_url":"https://www.nature.com/articles/s42256-023-00763-w.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G181674694","display_name":null,"funder_award_id":"DMS1763272","funder_id":"https://openalex.org/F4320332172","funder_display_name":"Directorate for Mathematical and Physical Sciences"},{"id":"https://openalex.org/G1828171283","display_name":null,"funder_award_id":"0000000","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1860401443","display_name":null,"funder_award_id":"MCB2028424","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G1956888977","display_name":null,"funder_award_id":"U01AR073159","funder_id":"https://openalex.org/F4320337362","funder_display_name":"National Institute of Arthritis and Musculoskeletal and Skin Diseases"},{"id":"https://openalex.org/G2197625046","display_name":null,"funder_award_id":"R01AR079150","funder_id":"https://openalex.org/F4320337362","funder_display_name":"National Institute of Arthritis and Musculoskeletal and Skin Diseases"},{"id":"https://openalex.org/G2318624699","display_name":null,"funder_award_id":"594598","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2432332902","display_name":null,"funder_award_id":"00000000","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3205510348","display_name":null,"funder_award_id":"DMS1763272","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4882129881","display_name":"MODULUS:RoL: Uncovering Roles of Cell Fate Decisions in Migrating Neural Crest Cells","funder_award_id":"2028424","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5613750303","display_name":null,"funder_award_id":"AN-0000000062","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5714374668","display_name":null,"funder_award_id":"MCB2028424","funder_id":"https://openalex.org/F4320337397","funder_display_name":"Division of Molecular and Cellular Biosciences"},{"id":"https://openalex.org/G6577798912","display_name":null,"funder_award_id":"R01AR079150","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6840471226","display_name":null,"funder_award_id":"1763272","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7313616998","display_name":null,"funder_award_id":"AR073159","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7371839055","display_name":null,"funder_award_id":"MCB2028424","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7452998910","display_name":null,"funder_award_id":"00000","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8673606761","display_name":null,"funder_award_id":"DMS1763272","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G92511650","display_name":null,"funder_award_id":"U01AR073159","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G986754019","display_name":null,"funder_award_id":"594598","funder_id":"https://openalex.org/F4320306164","funder_display_name":"Simons Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306164","display_name":"Simons Foundation","ror":"https://ror.org/01cmst727"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332172","display_name":"Directorate for Mathematical and Physical Sciences","ror":"https://ror.org/029b7h395"},{"id":"https://openalex.org/F4320337362","display_name":"National Institute of Arthritis and Musculoskeletal and Skin Diseases","ror":"https://ror.org/006zn3t30"},{"id":"https://openalex.org/F4320337397","display_name":"Division of Molecular and Cellular Biosciences","ror":"https://ror.org/002jdaq33"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4389166577.pdf"},"referenced_works_count":71,"referenced_works":["https://openalex.org/W1984883254","https://openalex.org/W1985506636","https://openalex.org/W2022616393","https://openalex.org/W2096525273","https://openalex.org/W2117623697","https://openalex.org/W2135937351","https://openalex.org/W2151064288","https://openalex.org/W2154139219","https://openalex.org/W2168413061","https://openalex.org/W2214074259","https://openalex.org/W2321226981","https://openalex.org/W2528005577","https://openalex.org/W2587655168","https://openalex.org/W2747877289","https://openalex.org/W2767394894","https://openalex.org/W2789285779","https://openalex.org/W2889326414","https://openalex.org/W2911279170","https://openalex.org/W2927507212","https://openalex.org/W2929901429","https://openalex.org/W2949177718","https://openalex.org/W2950372712","https://openalex.org/W2952070047","https://openalex.org/W2952840385","https://openalex.org/W2957836762","https://openalex.org/W2960291592","https://openalex.org/W2970971581","https://openalex.org/W2974067482","https://openalex.org/W2987419797","https://openalex.org/W2997831639","https://openalex.org/W3002219094","https://openalex.org/W3003309211","https://openalex.org/W3006560095","https://openalex.org/W3009992010","https://openalex.org/W3014807564","https://openalex.org/W3021400239","https://openalex.org/W3034020284","https://openalex.org/W3034652062","https://openalex.org/W3035182494","https://openalex.org/W3047141442","https://openalex.org/W3081981716","https://openalex.org/W3082511142","https://openalex.org/W3093985743","https://openalex.org/W3112600195","https://openalex.org/W3127118257","https://openalex.org/W3130012433","https://openalex.org/W3132661792","https://openalex.org/W3134241784","https://openalex.org/W3138463430","https://openalex.org/W3164448939","https://openalex.org/W3196450774","https://openalex.org/W3201535265","https://openalex.org/W3210953958","https://openalex.org/W3215961257","https://openalex.org/W4207078846","https://openalex.org/W4210575300","https://openalex.org/W4213289544","https://openalex.org/W4225468457","https://openalex.org/W4226443083","https://openalex.org/W4245543257","https://openalex.org/W4283079314","https://openalex.org/W4283776350","https://openalex.org/W4292808722","https://openalex.org/W4308132330","https://openalex.org/W4309506674","https://openalex.org/W4319591822","https://openalex.org/W4362692631","https://openalex.org/W4382918912","https://openalex.org/W4385460688","https://openalex.org/W6752307458","https://openalex.org/W6911474572"],"related_works":["https://openalex.org/W2051487156","https://openalex.org/W2073681303","https://openalex.org/W2770593030","https://openalex.org/W2053286651","https://openalex.org/W2055243143","https://openalex.org/W2950199998","https://openalex.org/W2560421304","https://openalex.org/W2951387065","https://openalex.org/W4385727351","https://openalex.org/W4306798985"],"abstract_inverted_index":{"Time-series":[0],"single-cell":[1],"RNA":[2],"sequencing":[3],"(scRNA-seq)":[4],"datasets":[5],"provide":[6],"unprecedented":[7],"opportunities":[8],"to":[9,17,26,140],"learn":[10],"dynamic":[11,48],"processes":[12],"of":[13,21,121],"cellular":[14],"systems.":[15],"Due":[16],"the":[18,28,57,67,84,119,124],"destructive":[19],"nature":[20],"sequencing,":[22],"it":[23],"remains":[24],"challenging":[25],"link":[27],"scRNA-seq":[29,115],"snapshots":[30],"sampled":[31],"at":[32,133],"different":[33],"time":[34,135],"points.":[35],"Here":[36],"we":[37,72,117],"present":[38],"TIGON,":[39],"a":[40,74,79],"dynamic,":[41],"unbalanced":[42],"optimal":[43,69],"transport":[44,70],"algorithm":[45],"that":[46],"reconstructs":[47],"trajectories":[49],"and":[50,94,102,109,137,145],"population":[51,111],"growth":[52,122],"simultaneously":[53],"as":[54,56],"well":[55],"underlying":[58],"gene":[59,131,142],"regulatory":[60,143],"network":[61],"from":[62],"multiple":[63],"snapshots.":[64],"To":[65],"tackle":[66],"high-dimensional":[68],"problem,":[71],"introduce":[73],"deep":[75],"learning":[76],"method":[77],"using":[78],"dimensionless":[80],"formulation":[81],"based":[82],"on":[83,91],"Wasserstein-Fisher-Rao":[85],"(WFR)":[86],"distance.":[87],"TIGON":[88],"is":[89],"evaluated":[90],"simulated":[92],"data":[93],"compared":[95],"with":[96],"existing":[97],"methods":[98],"for":[99],"its":[100,138],"robustness":[101],"accuracy":[103],"in":[104,123,129],"predicting":[105],"cell":[106,110],"state":[107],"transition":[108],"growth.":[112],"Using":[113],"three":[114],"datasets,":[116],"show":[118],"importance":[120],"temporal":[125,141],"inference,":[126],"TIGON's":[127],"capability":[128],"reconstructing":[130],"expression":[132],"unmeasured":[134],"points":[136],"applications":[139],"networks":[144],"cell-cell":[146],"communication":[147],"inference.":[148]},"counts_by_year":[{"year":2026,"cited_by_count":12},{"year":2025,"cited_by_count":52},{"year":2024,"cited_by_count":23},{"year":2023,"cited_by_count":3}],"updated_date":"2026-04-14T08:04:32.555800","created_date":"2025-10-10T00:00:00"}
