{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,18]],"date-time":"2026-10-18T03:55:26Z","timestamp":1792295726455,"version":"4.4.0"},"reference-count":48,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2023,9,1]],"date-time":"2023-09-01T00:00:00Z","timestamp":1693526400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"funder":[{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["R01HL164414"],"award-info":[{"award-number":["R01HL164414"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["U01HL122642"],"award-info":[{"award-number":["U01HL122642"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["U01HL148856"],"award-info":[{"award-number":["U01HL148856"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["U01HL134745"],"award-info":[{"award-number":["U01HL134745"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["R01HL153045"],"award-info":[{"award-number":["R01HL153045"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["P30DK117467"],"award-info":[{"award-number":["P30DK117467"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100005963","name":"LAM Foundation","doi-asserted-by":"publisher","award":["LAM0150C01-22"],"award-info":[{"award-number":["LAM0150C01-22"]}],"id":[{"id":"10.13039\/100005963","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["R01HL164414"],"award-info":[{"award-number":["R01HL164414"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["U01HL122642"],"award-info":[{"award-number":["U01HL122642"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["U01HL148856"],"award-info":[{"award-number":["U01HL148856"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["U01HL134745"],"award-info":[{"award-number":["U01HL134745"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["R01HL153045"],"award-info":[{"award-number":["R01HL153045"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["P30DK117467"],"award-info":[{"award-number":["P30DK117467"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"LAM Foundation","doi-asserted-by":"publisher","award":["LAM0150C01-22"],"award-info":[{"award-number":["LAM0150C01-22"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.atsjournals.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2023,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Rationale<\/jats:title>\n                    <jats:p>Alveolar capillary dysplasia with misalignment of pulmonary veins (ACDMPV) is a lethal developmental disorder of lung morphogenesis caused by insufficiency of FOXF1 (forkhead box F1) transcription factor function. The cellular and transcriptional mechanisms by which FOXF1 deficiency disrupts human lung formation are unknown.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Objectives<\/jats:title>\n                    <jats:p>To identify cell types, gene networks, and cell\u2013cell interactions underlying the pathogenesis of ACDMPV.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>We used single-nucleus RNA and assay for transposase-accessible chromatin sequencing, immunofluorescence confocal microscopy, and RNA in situ hybridization to identify cell types and molecular networks influenced by FOXF1 in ACDMPV lungs.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Measurements and Main Results<\/jats:title>\n                    <jats:p>Pathogenic single-nucleotide variants and copy-number variant deletions involving the FOXF1 gene locus in all subjects with ACDMPV (n\u2009=\u20096) were accompanied by marked changes in lung structure, including deficient alveolar development and a paucity of pulmonary microvasculature. Single-nucleus RNA and assay for transposase-accessible chromatin sequencing identified alterations in cell number and gene expression in endothelial cells (ECs), pericytes, fibroblasts, and epithelial cells in ACDMPV lungs. Distinct cell-autonomous roles for FOXF1 in capillary ECs and pericytes were identified. Pathogenic variants involving the FOXF1 gene locus disrupt gene expression in EC progenitors, inhibiting the differentiation or survival of capillary 2 ECs and cell\u2013cell interactions necessary for both pulmonary vasculogenesis and alveolar type 1 cell differentiation. Loss of the pulmonary microvasculature was associated with increased VEGFA (vascular endothelial growth factor A) signaling and marked expansion of systemic bronchial ECs expressing COL15A1 (collagen type XV \u03b1 1 chain).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusions<\/jats:title>\n                    <jats:p>Distinct FOXF1 gene regulatory networks were identified in subsets of pulmonary endothelial and fibroblast progenitors, providing both cellular and molecular targets for the development of therapies for ACDMPV and other diffuse lung diseases of infancy.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1164\/rccm.202210-2015oc","type":"journal-article","created":{"date-parts":[[2023,7,18]],"date-time":"2023-07-18T17:12:36Z","timestamp":1689700356000},"page":"709-725","update-policy":"https:\/\/doi.org\/10.1164\/crossmarkpolicies","source":"Crossref","is-referenced-by-count":41,"title":["Single Cell Multiomics Identifies Cells and Genetic Networks Underlying Alveolar Capillary Dysplasia"],"prefix":"10.1093","volume":"208","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5502-9172","authenticated-orcid":false,"given":"Minzhe","family":"Guo","sequence":"first","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kathryn A.","family":"Wikenheiser-Brokamp","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Division of Pathology and Laboratory Medicine"},{"name":"Department of Pathology & Laboratory Medicine, College of Medicine, University of Cincinnati, Cincinnati, Ohio"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joseph A.","family":"Kitzmiller","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cheng","family":"Jiang","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guolun","family":"Wang","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Center for Lung Regenerative Medicine"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Allen","family":"Wang","sequence":"additional","affiliation":[{"name":"Center for Epigenomics & Department of Cellular & Molecular Medicine"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sebastian","family":"Preissl","sequence":"additional","affiliation":[{"name":"Center for Epigenomics & Department of Cellular & Molecular Medicine"},{"name":"Institute of Experimental and Clinical Pharmacology and Toxicology, Faculty of Medicine, University of Freiburg, Freiburg, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaomeng","family":"Hou","sequence":"additional","affiliation":[{"name":"Center for Epigenomics & Department of Cellular & Molecular Medicine"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Justin","family":"Buchanan","sequence":"additional","affiliation":[{"name":"Center for Epigenomics & Department of Cellular & Molecular Medicine"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2340-4513","authenticated-orcid":false,"given":"Justyna A.","family":"Karolak","sequence":"additional","affiliation":[{"name":"Department of Genetics and Pharmaceutical Microbiology, Poznan University of Medical Sciences, Poznan, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yifei","family":"Miao","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Division of Developmental Biology, and"},{"name":"Center for Stem Cell and Organoid Medicine, Cincinnati Children\u2019s Hospital Medical Center, Cincinnati, Ohio"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3064-2069","authenticated-orcid":false,"given":"David B.","family":"Frank","sequence":"additional","affiliation":[{"name":"Penn-CHOP Lung Biology Institute and"},{"name":"Penn Cardiovascular Institute, University of Pennsylvania, Philadelphia, Pennsylvania"},{"name":"Division of Cardiology, Department of Pediatrics, Children\u2019s Hospital of Philadelphia, Philadelphia, Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2643-0610","authenticated-orcid":false,"given":"William J.","family":"Zacharias","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xin","family":"Sun","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, and"},{"name":"Department of Biological Sciences, University of California, San Diego, La Jolla, California"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2025-027X","authenticated-orcid":false,"given":"Yan","family":"Xu","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Division of Biomedical Informatics"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mingxia","family":"Gu","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Division of Developmental Biology, and"},{"name":"Center for Stem Cell and Organoid Medicine, Cincinnati Children\u2019s Hospital Medical Center, Cincinnati, Ohio"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pawel","family":"Stankiewicz","sequence":"additional","affiliation":[{"name":"Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas; and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vladimir V.","family":"Kalinichenko","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Center for Lung Regenerative Medicine"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1668-5174","authenticated-orcid":false,"given":"Jennifer A.","family":"Wambach","sequence":"additional","affiliation":[{"name":"Edward Mallinckrodt Department of Pediatrics, Washington University School of Medicine and St. Louis Children\u2019s Hospital, St. Louis, Missouri"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeffrey A.","family":"Whitsett","sequence":"additional","affiliation":[{"name":"The Perinatal Institute and Section of Neonatology, Perinatal and Pulmonary Biology"},{"name":"Department of Pediatrics and"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,9,15]]},"reference":[{"key":"2026012204385011500_bib1","doi-asserted-by":"crossref","first-page":"1093","DOI":"10.1164\/rccm.201903-0495TR","article-title":"Clinical, histopathological, and molecular diagnostics in lethal lung developmental disorders","volume":"200","author":"Vincent","year":"2019","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib2","doi-asserted-by":"crossref","first-page":"172","DOI":"10.1164\/rccm.201010-1697CI","article-title":"Alveolar capillary dysplasia","volume":"184","author":"Bishop","year":"2011","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib3","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1164\/rccm.201305-0923ST","article-title":"An official American Thoracic Society clinical practice guideline: classification, evaluation, and management of childhood interstitial lung disease in infancy","volume":"188","author":"Kurland","year":"2013","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib4","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1007\/s00439-016-1655-9","article-title":"Pathogenetics of alveolar capillary dysplasia with misalignment of pulmonary veins","volume":"135","author":"Szafranski","year":"2016","journal-title":"Hum Genet"},{"key":"2026012204385011500_bib5","doi-asserted-by":"crossref","first-page":"158","DOI":"10.1016\/j.jpeds.2017.10.026","article-title":"Infants with atypical presentations of alveolar capillary dysplasia with misalignment of the pulmonary veins who underwent bilateral lung transplantation","volume":"194","author":"Towe","year":"2018","journal-title":"J Pediatr"},{"key":"2026012204385011500_bib6","doi-asserted-by":"crossref","first-page":"214","DOI":"10.1016\/j.jpeds.2019.01.047","article-title":"Histopathologic and genetic features of alveolar capillary dysplasia with atypical late presentation and prolonged survival","volume":"210","author":"Edwards","year":"2019","journal-title":"J Pediatr"},{"key":"2026012204385011500_bib7","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1016\/j.jpeds.2013.08.035","article-title":"Three-dimensional reconstruction identifies misaligned pulmonary veins as intrapulmonary shunt vessels in alveolar capillary dysplasia","volume":"164","author":"Galambos","year":"2014","journal-title":"J Pediatr"},{"key":"2026012204385011500_bib8","doi-asserted-by":"crossref","first-page":"84","DOI":"10.1136\/thoraxjnl-2014-205851","article-title":"Intrapulmonary vascular shunt pathways in alveolar capillary dysplasia with misalignment of pulmonary veins","volume":"70","author":"Galambos","year":"2015","journal-title":"Thorax"},{"key":"2026012204385011500_bib9","doi-asserted-by":"crossref","first-page":"1045","DOI":"10.1164\/rccm.201810-1897OC","article-title":"The S52F FOXF1 mutation inhibits STAT3 signaling and causes alveolar capillary dysplasia","volume":"200","author":"Pradhan","year":"2019","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib10","doi-asserted-by":"crossref","first-page":"L521","DOI":"10.1152\/ajplung.00212.2003","article-title":"Foxf1 haploinsufficiency reduces Notch-2 signaling during mouse lung development","volume":"286","author":"Kalinichenko","year":"2004","journal-title":"Am J Physiol Lung Cell Mol Physiol"},{"key":"2026012204385011500_bib11","doi-asserted-by":"crossref","first-page":"539","DOI":"10.1161\/CIRCULATIONAHA.121.053980","article-title":"Nanoparticle delivery of STAT3 alleviates pulmonary hypertension in a mouse model of alveolar capillary dysplasia","volume":"144","author":"Sun","year":"2021","journal-title":"Circulation"},{"key":"2026012204385011500_bib12","doi-asserted-by":"crossref","first-page":"153","DOI":"10.1016\/S1567-133X(03)00010-3","article-title":"The forkhead box F1 transcription factor is expressed in brain and head mesenchyme during mouse embryonic development","volume":"3","author":"Kalinichenko","year":"2003","journal-title":"Gene Expr Patterns"},{"key":"2026012204385011500_bib13","doi-asserted-by":"crossref","first-page":"709","DOI":"10.1161\/CIRCRESAHA.115.304382","article-title":"FOXF1 transcription factor is required for formation of embryonic vasculature by regulating VEGF signaling in endothelial cells","volume":"115","author":"Ren","year":"2014","journal-title":"Circ Res"},{"key":"2026012204385011500_bib14","doi-asserted-by":"crossref","first-page":"620667","DOI":"10.3389\/fcell.2020.620667","article-title":"Fgf10\/Fgfr2b signaling orchestrates the symphony of molecular, cellular, and physical processes required for harmonious airway branching morphogenesis","volume":"8","author":"Jones","year":"2021","journal-title":"Front Cell Dev Biol"},{"key":"2026012204385011500_bib15","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1016\/j.ajhg.2018.12.010","article-title":"Complex compound inheritance of lethal lung developmental disorders due to disruption of the TBX-FGF pathway","volume":"104","author":"Karolak","year":"2019","journal-title":"Am J Hum Genet"},{"key":"2026012204385011500_bib16","doi-asserted-by":"crossref","first-page":"50","DOI":"10.1016\/j.ydbio.2018.08.011","article-title":"FOXF1 transcription factor promotes lung morphogenesis by inducing cellular proliferation in fetal lung mesenchyme","volume":"443","author":"Ustiyan","year":"2018","journal-title":"Dev Biol"},{"key":"2026012204385011500_bib17","doi-asserted-by":"crossref","first-page":"e62522","DOI":"10.7554\/eLife.62522","article-title":"Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes","volume":"9","author":"Wang","year":"2020","journal-title":"eLife"},{"key":"2026012204385011500_bib18","doi-asserted-by":"crossref","first-page":"eabc3172","DOI":"10.1126\/science.abc3172","article-title":"Genomic, epigenomic, and biophysical cues controlling the emergence of the lung alveolus","volume":"371","author":"Zepp","year":"2021","journal-title":"Science"},{"key":"2026012204385011500_bib19","first-page":"4566","article-title":"Guided construction of single cell reference for human and mouse lung","volume":"14","author":"Guo","year":"2023"},{"key":"2026012204385011500_bib20","doi-asserted-by":"crossref","first-page":"112","DOI":"10.1016\/j.devcel.2021.11.007","article-title":"A census of the lung: CellCards from LungMAP","volume":"57","author":"Sun","year":"2022","journal-title":"Dev Cell"},{"key":"2026012204385011500_bib21","doi-asserted-by":"crossref","first-page":"785","DOI":"10.1038\/s41586-020-2822-7","article-title":"Capillary cell-type specialization in the alveolus","volume":"586","author":"Gillich","year":"2020","journal-title":"Nature"},{"key":"2026012204385011500_bib22","doi-asserted-by":"crossref","first-page":"617","DOI":"10.1016\/j.devcel.2020.01.009","article-title":"Epithelial Vegfa specifies a distinct endothelial population in the mouse lung","volume":"52","author":"Vila Ellis","year":"2020","journal-title":"Dev Cell"},{"key":"2026012204385011500_bib23","doi-asserted-by":"crossref","first-page":"e53072","DOI":"10.7554\/eLife.53072","article-title":"Defining the role of pulmonary endothelial cell heterogeneity in the response to acute lung injury","volume":"9","author":"Niethamer","year":"2020","journal-title":"eLife"},{"key":"2026012204385011500_bib24","doi-asserted-by":"crossref","first-page":"eaba1983","DOI":"10.1126\/sciadv.aba1983","article-title":"Single-cell RNA-seq reveals ectopic and aberrant lung-resident cell populations in idiopathic pulmonary fibrosis","volume":"6","author":"Adams","year":"2020","journal-title":"Sci Adv"},{"key":"2026012204385011500_bib25","doi-asserted-by":"crossref","first-page":"619","DOI":"10.1038\/s41586-020-2922-4","article-title":"A molecular cell atlas of the human lung from single-cell RNA sequencing","volume":"587","author":"Travaglini","year":"2020","journal-title":"Nature"},{"key":"2026012204385011500_bib26","doi-asserted-by":"crossref","first-page":"286","DOI":"10.1161\/CIRCULATIONAHA.120.052318","article-title":"Integrated single-cell atlas of endothelial cells of the human lung","volume":"144","author":"Schupp","year":"2021","journal-title":"Circulation"},{"key":"2026012204385011500_bib27","doi-asserted-by":"crossref","first-page":"eaba7721","DOI":"10.1126\/science.aba7721","article-title":"A human cell atlas of fetal gene expression","volume":"370","author":"Cao","year":"2020","journal-title":"Science"},{"key":"2026012204385011500_bib28","doi-asserted-by":"crossref","first-page":"326","DOI":"10.1164\/rccm.202003-0758OC","article-title":"Generation of pulmonary endothelial progenitor cells for cell-based therapy using interspecies mouse-rat chimeras","volume":"204","author":"Wang","year":"2021","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib29","doi-asserted-by":"crossref","first-page":"2080","DOI":"10.1038\/s41467-022-29746-y","article-title":"Endothelial progenitor cells stimulate neonatal lung angiogenesis through FOXF1-mediated activation of BMP9\/ACVRL1 signaling","volume":"13","author":"Wang","year":"2022","journal-title":"Nat Commun"},{"key":"2026012204385011500_bib30","doi-asserted-by":"crossref","first-page":"471","DOI":"10.1164\/rccm.201909-1836OC","article-title":"In vivo generation of lung and thyroid tissues from embryonic stem cells using blastocyst complementation","volume":"203","author":"Wen","year":"2021","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib31","doi-asserted-by":"crossref","first-page":"1164","DOI":"10.1164\/rccm.201812-2312OC","article-title":"Postnatal alveologenesis depends on FOXF1 signaling in c-KIT+ endothelial progenitor cells","volume":"200","author":"Ren","year":"2019","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib32","doi-asserted-by":"crossref","first-page":"26","DOI":"10.1186\/s12931-021-01617-y","article-title":"Potential interactions between the TBX4-FGF10 and SHH-FOXF1 signaling during human lung development revealed using ChIP-seq","volume":"22","author":"Karolak","year":"2021","journal-title":"Respir Res"},{"key":"2026012204385011500_bib33","doi-asserted-by":"crossref","first-page":"1408","DOI":"10.1038\/s41587-020-0591-3","article-title":"Generalizing RNA velocity to transient cell states through dynamical modeling","volume":"38","author":"Bergen","year":"2020","journal-title":"Nat Biotechnol"},{"key":"2026012204385011500_bib34","doi-asserted-by":"crossref","first-page":"366","DOI":"10.1016\/j.stem.2020.06.020","article-title":"Inflammatory signals induce AT2 cell-derived damage-associated transient progenitors that mediate alveolar regeneration","volume":"27","author":"Choi","year":"2020","journal-title":"Cell Stem Cell"},{"key":"2026012204385011500_bib35","doi-asserted-by":"crossref","first-page":"934","DOI":"10.1038\/s41556-020-0542-8","article-title":"Persistence of a regeneration-associated, transitional alveolar epithelial cell state in pulmonary fibrosis","volume":"22","author":"Kobayashi","year":"2020","journal-title":"Nat Cell Biol"},{"key":"2026012204385011500_bib36","doi-asserted-by":"crossref","first-page":"3559","DOI":"10.1038\/s41467-020-17358-3","article-title":"Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis","volume":"11","author":"Strunz","year":"2020","journal-title":"Nat Commun"},{"key":"2026012204385011500_bib37","doi-asserted-by":"crossref","first-page":"622","DOI":"10.1101\/gr.257063.119","article-title":"Time course regulatory analysis based on paired expression and chromatin accessibility data","volume":"30","author":"Duren","year":"2020","journal-title":"Genome Res"},{"key":"2026012204385011500_bib38","doi-asserted-by":"crossref","first-page":"1595","DOI":"10.1242\/bio.019208","article-title":"Lethal lung hypoplasia and vascular defects in mice with conditional Foxf1 overexpression","volume":"5","author":"Dharmadhikari","year":"2016","journal-title":"Biol Open"},{"key":"2026012204385011500_bib39","doi-asserted-by":"crossref","first-page":"eabl7393","DOI":"10.1126\/sciadv.abl7393","article-title":"DIRECT-NET: an efficient method to discover cis-regulatory elements and construct regulatory networks from single-cell multiomics data","volume":"8","author":"Zhang","year":"2022","journal-title":"Sci Adv"},{"key":"2026012204385011500_bib40","doi-asserted-by":"crossref","first-page":"1523","DOI":"10.1038\/s41467-019-09234-6","article-title":"Metascape provides a biologist-oriented resource for the analysis of systems-level datasets","volume":"10","author":"Zhou","year":"2019","journal-title":"Nat Commun"},{"key":"2026012204385011500_bib41","doi-asserted-by":"crossref","first-page":"1088","DOI":"10.1038\/s41467-021-21246-9","article-title":"Inference and analysis of cell\u2013cell communication using CellChat","volume":"12","author":"Jin","year":"2021","journal-title":"Nat Commun"},{"key":"2026012204385011500_bib42","doi-asserted-by":"crossref","first-page":"eabl8574","DOI":"10.1126\/scitranslmed.abl8574","article-title":"Inflammatory blockade prevents injury to the developing pulmonary gas exchange surface in preterm primates","volume":"14","author":"Toth","year":"2022","journal-title":"Sci Transl Med"},{"key":"2026012204385011500_bib43","doi-asserted-by":"crossref","first-page":"1574","DOI":"10.1038\/s41467-017-01738-3","article-title":"Pericytes regulate VEGF-induced endothelial sprouting through VEGFR1","volume":"8","author":"Eilken","year":"2017","journal-title":"Nat Commun"},{"key":"2026012204385011500_bib44","doi-asserted-by":"crossref","first-page":"423","DOI":"10.1001\/archneur.1985.04060050017002","article-title":"Carotid bruit controversy","volume":"42","author":"Chambers","year":"1985","journal-title":"Arch Neurol"},{"key":"2026012204385011500_bib45","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1164\/rccm.201906-1232OC","article-title":"Nanoparticle delivery of proangiogenic transcription factors into the neonatal circulation inhibits alveolar simplification caused by hyperoxia","volume":"202","author":"Bolte","year":"2020","journal-title":"Am J Respir Crit Care Med"},{"key":"2026012204385011500_bib46","doi-asserted-by":"crossref","first-page":"212","DOI":"10.1186\/s12931-021-01797-7","article-title":"Perturbation of semaphorin and VEGF signaling in ACDMPV lungs due to FOXF1 deficiency","volume":"22","author":"Karolak","year":"2021","journal-title":"Respir Res"},{"key":"2026012204385011500_bib47","doi-asserted-by":"crossref","first-page":"3862","DOI":"10.1172\/JCI61334","article-title":"Mesodermal Pten inactivation leads to alveolar capillary dysplasia- like phenotype","volume":"122","author":"Tiozzo","year":"2012","journal-title":"J Clin Invest"},{"key":"2026012204385011500_bib48","doi-asserted-by":"crossref","first-page":"e94390","DOI":"10.1371\/journal.pone.0094390","article-title":"Comparative analyses of lung transcriptomes in patients with alveolar capillary dysplasia with misalignment of pulmonary veins and in foxf1 heterozygous knockout mice","volume":"9","author":"Sen","year":"2014","journal-title":"PLoS One"}],"container-title":["American Journal of Respiratory and Critical Care Medicine"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/ajrccm\/article-pdf\/208\/6\/709\/66432426\/ajrccm_208_6_709.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/ajrccm\/article-pdf\/208\/6\/709\/66432426\/ajrccm_208_6_709.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,22]],"date-time":"2026-01-22T09:39:12Z","timestamp":1769074752000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/ajrccm\/article\/208\/6\/709\/8426810"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,9]]},"references-count":48,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2023,9,15]]},"published-print":{"date-parts":[[2023,9,15]]}},"URL":"https:\/\/doi.org\/10.1164\/rccm.202210-2015oc","relation":{},"ISSN":["1073-449X","1535-4970"],"issn-type":[{"value":"1073-449X","type":"print"},{"value":"1535-4970","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2023,9]]},"published":{"date-parts":[[2023,9]]},"assertion":[{"value":"2022-10-31","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-07-18","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-09-15","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}