{"doi":"10.1093/stmcls/sxad030","title":"Single-Cell RNA Sequencing of<i>Sox17-</i>Expressing Lineages Reveals Distinct Gene Regulatory Networks and Dynamic Developmental Trajectories","abstract":"During early embryogenesis, the transcription factor SOX17 contributes to hepato-pancreato-biliary system formation and vascular-hematopoietic emergence. To better understand Sox17 function in the developing endoderm and endothelium, we developed a dual-color temporal lineage-tracing strategy in mice combined with single-cell RNA sequencing to analyze 6934 cells from Sox17-expressing lineages at embryonic days 9.0-9.5. Our analyses showed 19 distinct cellular clusters combined from all 3 germ layers. Differential gene expression, trajectory and RNA-velocity analyses of endothelial cells revealed a heterogenous population of uncommitted and specialized endothelial subtypes, including 2 hemogenic populations that arise from different origins. Similarly, analyses of posterior foregut endoderm revealed subsets of hepatic, pancreatic, and biliary progenitors with overlapping developmental potency. Calculated gene-regulatory networks predict gene regulons that are dominated by cell type-specific transcription factors unique to each lineage. Vastly different Sox17 regulons found in endoderm versus endothelial cells support the differential interactions of SOX17 with other regulatory factors thereby enabling lineage-specific regulatory actions.","journal":"Stem Cells","year":2023,"id":365442,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":6,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9568,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2023-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":289721,"name":"Anna B. Osipovich","orcid":"0000-0002-9513-2262","position":1,"is_corresponding":false},{"id":1120940,"name":"Bryan Liu","orcid":"0000-0003-0080-6736","position":2,"is_corresponding":false},{"id":250518,"name":"Shristi Shrestha","orcid":"0000-0003-4519-1712","position":3,"is_corresponding":false},{"id":250517,"name":"Jeeyeon Cha","orcid":"0000-0002-0312-2391","position":4,"is_corresponding":false},{"id":502800,"name":"Christopher V.E. Wright","orcid":"0000-0002-9260-4009","position":5,"is_corresponding":false},{"id":289722,"name":"Mark A. Magnuson","orcid":"0000-0002-8824-6499","position":6,"is_corresponding":false},{"id":1079616,"name":"Linh T. Trinh","orcid":"0000-0002-9394-1648","position":0,"is_corresponding":true}],"reference_count":105,"raw_metadata":null,"created_at":"2026-07-19T01:14:46.760245Z","pmid":"37085274","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}