{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,7]],"date-time":"2026-10-07T18:03:13Z","timestamp":1791396193485,"version":"4.3.3"},"reference-count":202,"publisher":"Rockefeller University Press","issue":"9","license":[{"start":{"date-parts":[[2022,8,8]],"date-time":"2022-08-08T00:00:00Z","timestamp":1659916800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000050","name":"National Heart, Lung, and Blood Institute","doi-asserted-by":"publisher","award":["F30HL152628"],"award-info":[{"award-number":["F30HL152628"]}],"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":["T32HL007574"],"award-info":[{"award-number":["T32HL007574"]}],"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":["R01HL144780"],"award-info":[{"award-number":["R01HL144780"]}],"id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100004412","name":"Human Frontier Science Program","doi-asserted-by":"publisher","award":["HFSP LT000494\/2020-L"],"award-info":[{"award-number":["HFSP LT000494\/2020-L"]}],"id":[{"id":"10.13039\/100004412","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["rupress.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2022,9,5]]},"abstract":"<jats:p>The zebrafish has proven to be a valuable model organism for studying hematopoiesis, but relatively little is known about zebrafish immune cell development and functional diversity. Elucidating key aspects of zebrafish lymphocyte development and exploring the breadth of effector functions would provide valuable insight into the evolution of adaptive immunity. We performed single-cell RNA sequencing on \u223c70,000 cells from the zebrafish marrow and thymus to establish a gene expression map of zebrafish immune cell development. We uncovered rich cellular diversity in the juvenile and adult zebrafish thymus, elucidated B- and T-cell developmental trajectories, and transcriptionally characterized subsets of hematopoietic stem and progenitor cells and early thymic progenitors. Our analysis permitted the identification of two dendritic-like cell populations and provided evidence in support of the existence of a pre-B cell state. Our results provide critical insights into the landscape of zebrafish immunology and offer a foundation for cellular and genetic studies.<\/jats:p>","DOI":"10.1084\/jem.20220038","type":"journal-article","created":{"date-parts":[[2022,8,8]],"date-time":"2022-08-08T13:46:37Z","timestamp":1659966397000},"update-policy":"https:\/\/doi.org\/10.1084\/jem.crossmarkpolicy","source":"Crossref","is-referenced-by-count":61,"title":["Single-cell analyses reveal early thymic progenitors and pre-B cells in zebrafish"],"prefix":"10.1084","volume":"219","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3484-5461","authenticated-orcid":true,"given":"Sara A.","family":"Rubin","sequence":"first","affiliation":[{"name":"Stem Cell Program and Division of Hematology\/Oncology, Boston Children\u2019s Hospital and Dana-Farber Cancer Institute, Boston, MA 1"},{"name":"Department of Immunology, Blavatnik Institute, Harvard Medical School, Boston, MA 2"},{"name":"Stem Cell and Regenerative Biology Department, Harvard University, Cambridge, MA 3"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8351-4768","authenticated-orcid":true,"given":"Chlo\u00e9 S.","family":"Baron","sequence":"additional","affiliation":[{"name":"Stem Cell Program and Division of Hematology\/Oncology, Boston Children\u2019s Hospital and Dana-Farber Cancer Institute, Boston, MA 1"},{"name":"Stem Cell and Regenerative Biology Department, Harvard University, Cambridge, MA 3"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8617-6565","authenticated-orcid":true,"given":"Cecilia","family":"Pessoa Rodrigues","sequence":"additional","affiliation":[{"name":"Stem Cell Program and Division of Hematology\/Oncology, Boston Children\u2019s Hospital and Dana-Farber Cancer Institute, Boston, MA 1"},{"name":"Stem Cell and Regenerative Biology Department, Harvard University, Cambridge, MA 3"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1648-2369","authenticated-orcid":true,"given":"Madeleine","family":"Duran","sequence":"additional","affiliation":[{"name":"Department of Genome Sciences, University of Washington, Seattle, WA 4"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1759-885X","authenticated-orcid":true,"given":"Alexandra F.","family":"Corbin","sequence":"additional","affiliation":[{"name":"Stem Cell Program and Division of Hematology\/Oncology, Boston Children\u2019s Hospital and Dana-Farber Cancer Institute, Boston, MA 1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3064-3141","authenticated-orcid":true,"given":"Song P.","family":"Yang","sequence":"additional","affiliation":[{"name":"Stem Cell Program and Division of Hematology\/Oncology, Boston Children\u2019s Hospital and Dana-Farber Cancer Institute, Boston, MA 1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8105-4347","authenticated-orcid":true,"given":"Cole","family":"Trapnell","sequence":"additional","affiliation":[{"name":"Department of Genome Sciences, University of Washington, Seattle, WA 4"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0860-926X","authenticated-orcid":true,"given":"Leonard I.","family":"Zon","sequence":"additional","affiliation":[{"name":"Stem Cell Program and Division of Hematology\/Oncology, Boston Children\u2019s Hospital and Dana-Farber Cancer Institute, Boston, MA 1"},{"name":"Department of Immunology, Blavatnik Institute, Harvard Medical School, Boston, MA 2"},{"name":"Stem Cell and Regenerative Biology Department, Harvard University, Cambridge, MA 3"},{"name":"Howard Hughes Medical Institute, Boston Children\u2019s Hospital, Boston, MA 5"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"291","published-online":{"date-parts":[[2022,8,8]]},"reference":[{"key":"2025040410161521300_bib1","doi-asserted-by":"publisher","first-page":"145","DOI":"10.1016\/j.mce.2010.01.032","article-title":"Role of melanocortin receptor accessory proteins in the function of zebrafish melanocortin receptor type 2","volume":"320","author":"Agulleiro","year":"2010","journal-title":"Mol. Cell. Endocrinol."},{"key":"2025040410161521300_bib2","doi-asserted-by":"publisher","first-page":"4118","DOI":"10.1073\/pnas.79.13.4118","article-title":"Joining of immunoglobulin heavy chain gene segments: Implications from a chromosome with evidence of three D-JH fusions","volume":"79","author":"Alt","year":"1982","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib3","doi-asserted-by":"publisher","first-page":"2045","DOI":"10.1038\/s41467-017-02305-6","article-title":"Single-cell RNA-sequencing uncovers transcriptional states and fate decisions in haematopoiesis","volume":"8","author":"Athanasiadis","year":"2017","journal-title":"Nat. Commun."},{"key":"2025040410161521300_bib4","doi-asserted-by":"publisher","first-page":"2673","DOI":"10.1182\/bloodadvances.2020002992","article-title":"Single-cell ATAC-seq reveals GATA2-dependent priming defect in myeloid and a maturation bottleneck in lymphoid lineages","volume":"5","author":"Avagyan","year":"2021","journal-title":"Blood Adv."},{"key":"2025040410161521300_bib5","doi-asserted-by":"publisher","first-page":"214","DOI":"10.3389\/fimmu.2012.00214","article-title":"Expression of XCR1 characterizes the batf3-dependent lineage of dendritic cells capable of antigen cross-presentation","volume":"3","author":"Bachem","year":"2012","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib6","doi-asserted-by":"publisher","first-page":"186","DOI":"10.1016\/j.cell.2009.04.017","article-title":"Evolution of genetic networks underlying the emergence of thymopoiesis in vertebrates","volume":"138","author":"Bajoghli","year":"2009","journal-title":"Cell"},{"key":"2025040410161521300_bib7","doi-asserted-by":"publisher","first-page":"E4179","DOI":"10.3390\/ijms20174179","article-title":"Zebrafish and Medaka: Two teleost models of T-cell and thymic development","volume":"20","author":"Bajoghli","year":"2019","journal-title":"Int. J. Mol. Sci."},{"key":"2025040410161521300_bib8","doi-asserted-by":"publisher","first-page":"3944","DOI":"10.1182\/blood-2010-03-267419","article-title":"Eosinophils in the zebrafish: Prospective isolation, characterization, and eosinophilia induction by helminth determinants","volume":"116","author":"Balla","year":"2010","journal-title":"Blood"},{"key":"2025040410161521300_bib9","doi-asserted-by":"publisher","first-page":"9573","DOI":"10.1073\/pnas.1314562111","article-title":"PDK1 regulates B cell differentiation and homeostasis","volume":"111","author":"Baracho","year":"2014","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib10","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.56221","article-title":"Ageing compromises mouse thymus function and remodels epithelial cell differentiation","volume":"9","author":"Baran-Gale","year":"2020","journal-title":"Elife"},{"key":"2025040410161521300_bib11","doi-asserted-by":"publisher","first-page":"1518","DOI":"10.1016\/j.celrep.2016.10.021","article-title":"SWAP70 organizes the actin cytoskeleton and is essential for phagocytosis","volume":"17","author":"Baranov","year":"2016","journal-title":"Cell Rep."},{"key":"2025040410161521300_bib12","doi-asserted-by":"publisher","first-page":"204","DOI":"10.3389\/fnagi.2019.00204","article-title":"Role of tau as a microtubule-associated protein: Structural and functional aspects","volume":"11","author":"Barbier","year":"2019","journal-title":"Front. Aging Neurosci."},{"key":"2025040410161521300_bib13","doi-asserted-by":"publisher","first-page":"527","DOI":"10.1016\/j.cell.2019.08.006","article-title":"Cell type purification by single-cell transcriptome-trained sorting","volume":"179","author":"Baron","year":"2019","journal-title":"Cell"},{"key":"2025040410161521300_bib14","doi-asserted-by":"publisher","first-page":"712572","DOI":"10.3389\/fimmu.2021.712572","article-title":"Complement factor D as a strategic target for regulating the alternative complement pathway","volume":"12","author":"Barratt","year":"2021","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib15","doi-asserted-by":"publisher","first-page":"8","DOI":"10.3390\/biology10010008","article-title":"Revisiting the teleost thymus: Current knowledge and future perspectives","volume":"10","author":"Barraza","year":"2020","journal-title":"Biology"},{"key":"2025040410161521300_bib16","doi-asserted-by":"publisher","first-page":"1096","DOI":"10.1038\/s41467-021-21346-6","article-title":"Single-cell transcriptional profiling of human thymic stroma uncovers novel cellular heterogeneity in the thymic medulla","volume":"12","author":"Bautista","year":"2021","journal-title":"Nat. Commun."},{"key":"2025040410161521300_bib17","doi-asserted-by":"publisher","first-page":"735","DOI":"10.1007\/s00251-007-0241-7","article-title":"Characterization of terminal deoxynucleotidyl transferase and polymerase mu in zebrafish","volume":"59","author":"Beetz","year":"2007","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib18","doi-asserted-by":"publisher","first-page":"1509","DOI":"10.3109\/07420528.2010.510229","article-title":"Multiple PAR and E4BP4 bZIP transcription factors in zebrafish: Diverse spatial and temporal expression patterns","volume":"27","author":"Ben-Moshe","year":"2010","journal-title":"Chronobiol. Int."},{"key":"2025040410161521300_bib19","doi-asserted-by":"publisher","first-page":"1853","DOI":"10.1242\/dev.015297","article-title":"CD41+ cmyb+ precursors colonize the zebrafish pronephros by a novel migration route to initiate adult hematopoiesis","volume":"135","author":"Bertrand","year":"2008","journal-title":"Development"},{"key":"2025040410161521300_bib20","doi-asserted-by":"publisher","first-page":"78","DOI":"10.1080\/15476278.2016.1172164","article-title":"The fatty acid chain elongase, Elovl1, is required for kidney and swim bladder development during zebrafish embryogenesis","volume":"12","author":"Bhandari","year":"2016","journal-title":"Organogenesis"},{"key":"2025040410161521300_bib21","doi-asserted-by":"publisher","first-page":"102","DOI":"10.1111\/imr.12206","article-title":"The regulatory network of B-cell differentiation: A focused view of early B-cell factor 1 function","volume":"261","author":"Boller","year":"2014","journal-title":"Immunol. Rev."},{"key":"2025040410161521300_bib22","doi-asserted-by":"publisher","first-page":"677707","DOI":"10.3389\/fimmu.2021.677707","article-title":"Intracellular and extracellular roles of granzyme K","volume":"12","author":"Bouwman","year":"2021","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib23","doi-asserted-by":"publisher","first-page":"138","DOI":"10.1681\/ASN.2017030270","article-title":"Opposing roles of dendritic cell subsets in experimental GN","volume":"29","author":"Brahler","year":"2018","journal-title":"J. Am. Soc. Nephrol."},{"key":"2025040410161521300_bib24","doi-asserted-by":"publisher","first-page":"1249","DOI":"10.1038\/leu.2010.104","article-title":"The role of PU.1 and GATA-1 transcription factors during normal and leukemogenic hematopoiesis","volume":"24","author":"Burda","year":"2010","journal-title":"Leukemia"},{"key":"2025040410161521300_bib25","doi-asserted-by":"publisher","first-page":"1050","DOI":"10.1242\/dev.119180","article-title":"Gata2b is a restricted early regulator of hemogenic endothelium in the zebrafish embryo","volume":"142","author":"Butko","year":"2015","journal-title":"Development"},{"key":"2025040410161521300_bib26","doi-asserted-by":"publisher","first-page":"156","DOI":"10.1186\/1471-2164-6-156","article-title":"The zebrafish progranulin gene family and antisense transcripts","volume":"6","author":"Cadieux","year":"2005","journal-title":"BMC Genom."},{"key":"2025040410161521300_bib27","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1055\/s-0038-1648803","article-title":"Clues for understanding the structure and function of a prototypic human integrin: The platelet glycoprotein IIb\/IIIa complex","volume":"72","author":"Calvete","year":"1994","journal-title":"Thromb. Haemostasis"},{"key":"2025040410161521300_bib28","doi-asserted-by":"publisher","first-page":"32","DOI":"10.3389\/fimmu.2017.00032","article-title":"Loss of CD44(dim) expression from early progenitor cells marks T-cell lineage commitment in the human thymus","volume":"8","author":"Cante-Barrett","year":"2017","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib29","doi-asserted-by":"publisher","first-page":"496","DOI":"10.1038\/s41586-019-0969-x","article-title":"The single-cell transcriptional landscape of mammalian organogenesis","volume":"566","author":"Cao","year":"2019","journal-title":"Nature"},{"key":"2025040410161521300_bib30","doi-asserted-by":"publisher","first-page":"451","DOI":"10.1101\/gr.207704.116","article-title":"Single-cell transcriptome analysis of fish immune cells provides insight into the evolution of vertebrate immune cell types","volume":"27","author":"Carmona","year":"2017","journal-title":"Genome Res."},{"key":"2025040410161521300_bib31","doi-asserted-by":"publisher","first-page":"350","DOI":"10.1016\/j.stem.2014.06.018","article-title":"Dnmt3a and Dnmt3b have overlapping and distinct functions in hematopoietic stem cells","volume":"15","author":"Challen","year":"2014","journal-title":"Cell Stem Cell"},{"key":"2025040410161521300_bib32","doi-asserted-by":"publisher","first-page":"688","DOI":"10.1182\/blood.v89.2.688","article-title":"Characterization of adult \u03b1- and \u03b2-globin genes in the zebrafish","volume":"89","author":"Chan","year":"1997","journal-title":"Blood"},{"key":"2025040410161521300_bib33","doi-asserted-by":"publisher","first-page":"747324","DOI":"10.3389\/fimmu.2021.747324","article-title":"Interleukin-7 biology and its effects on immune cells: Mediator of generation, differentiation, survival, and homeostasis","volume":"12","author":"Chen","year":"2021","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib34","doi-asserted-by":"publisher","first-page":"418","DOI":"10.1038\/375418a0","article-title":"Purification of an MCM-containing complex as a component of the DNA replication licensing system","volume":"375","author":"Chong","year":"1995","journal-title":"Nature"},{"key":"2025040410161521300_bib35","doi-asserted-by":"publisher","first-page":"77","DOI":"10.1016\/j.immuni.2018.11.010","article-title":"Transcription factor PU.1 promotes conventional dendritic cell identity and function via induction of transcriptional regulator DC-SCRIPT","volume":"50","author":"Chopin","year":"2019","journal-title":"Immunity"},{"key":"2025040410161521300_bib36","doi-asserted-by":"publisher","DOI":"10.1101\/2022.02.18.481026","article-title":"Single-cell immune profiling reveals novel thymus-seeding populations, T cell commitment, and multi-lineage development in the human thymus","author":"Cordes","year":"2022","journal-title":"bioRxiv"},{"key":"2025040410161521300_bib37","doi-asserted-by":"publisher","first-page":"518","DOI":"10.1016\/j.ydbio.2011.06.020","article-title":"Identification of an evolutionarily conserved regulatory element of the zebrafish col2a1a gene","volume":"357","author":"Dale","year":"2011","journal-title":"Dev. Biol."},{"key":"2025040410161521300_bib38","doi-asserted-by":"publisher","first-page":"1011","DOI":"10.3390\/cancers14041011","article-title":"The pseudokinase TRIB1 in immune cells and associated disorders","volume":"14","author":"Danger","year":"2022","journal-title":"Cancers"},{"key":"2025040410161521300_bib39","doi-asserted-by":"publisher","first-page":"295","DOI":"10.1038\/ni1166","article-title":"The immunoglobulin heavy-chain locus in zebrafish: Identification and expression of a previously unknown isotype, immunoglobulin Z","volume":"6","author":"Danilova","year":"2005","journal-title":"Nat. Immunol."},{"key":"2025040410161521300_bib40","doi-asserted-by":"publisher","first-page":"130","DOI":"10.3324\/haematol.2019.226126","article-title":"HES1 and HES4 have non-redundant roles downstream of Notch during early human T-cell development","volume":"106","author":"De Decker","year":"2021","journal-title":"Haematologica"},{"key":"2025040410161521300_bib41","doi-asserted-by":"publisher","first-page":"3520","DOI":"10.4049\/jimmunol.1600959","article-title":"CD4-Transgenic zebrafish reveal tissue-resident Th2- and regulatory T cell-like populations and diverse mononuclear phagocytes","volume":"197","author":"Dee","year":"2016","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib42","doi-asserted-by":"publisher","first-page":"170040","DOI":"10.1098\/rsob.170040","article-title":"Zebrafish nephrosin helps host defence against Escherichia coli infection","volume":"7","author":"Di","year":"2017","journal-title":"Open Biol."},{"key":"2025040410161521300_bib43","doi-asserted-by":"publisher","first-page":"10","DOI":"10.1186\/1755-1536-6-10","article-title":"Platelet-derived growth factor \u03b1 and \u03b2 receptors have overlapping functional activities towards fibroblasts","volume":"6","author":"Donovan","year":"2013","journal-title":"Fibrogenesis Tissue Repair"},{"key":"2025040410161521300_bib44","doi-asserted-by":"publisher","first-page":"3333","DOI":"10.1073\/pnas.0712312105","article-title":"A GATA-1-regulated microRNA locus essential for erythropoiesis","volume":"105","author":"Dore","year":"2008","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib45","doi-asserted-by":"publisher","first-page":"343","DOI":"10.1089\/zeb.2021.0071","article-title":"From IgZ to IgT: A call for a common nomenclature for immunoglobulin heavy chain genes of ray-finned fish","volume":"18","author":"Dornburg","year":"2021","journal-title":"Zebrafish"},{"key":"2025040410161521300_bib46","doi-asserted-by":"publisher","first-page":"4537","DOI":"10.1007\/s00018-013-1393-2","article-title":"Transcriptional control of CD4 and CD8 coreceptor expression during T cell development","volume":"70","author":"Ellmeier","year":"2013","journal-title":"Cell Mol. Life Sci."},{"key":"2025040410161521300_bib47","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0264776","article-title":"Analysis of transcribed sequences from young and mature zebrafish thrombocytes","volume":"17","author":"Fallatah","year":"2022","journal-title":"PLoS One"},{"key":"2025040410161521300_bib48","doi-asserted-by":"publisher","first-page":"362753","DOI":"10.1155\/2015\/362753","article-title":"Platelet-derived growth factor receptor \u03b1 as a marker of mesenchymal stem cells in development and stem cell biology","volume":"2015","author":"Farahani","year":"2015","journal-title":"Stem Cells Int."},{"key":"2025040410161521300_bib49","doi-asserted-by":"publisher","first-page":"431","DOI":"10.1002\/JLB.1A1119-223R","article-title":"The macrophage-expressed gene (mpeg) 1 identifies a subpopulation of B cells in the adult zebrafish","volume":"107","author":"Ferrero","year":"2020","journal-title":"J. Leukoc. Biol."},{"key":"2025040410161521300_bib50","doi-asserted-by":"publisher","first-page":"848","DOI":"10.1038\/ni.1766","article-title":"Themis controls thymocyte selection through regulation of T cell antigen receptor-mediated signaling","volume":"10","author":"Fu","year":"2009","journal-title":"Nat. Immunol."},{"key":"2025040410161521300_bib51","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1016\/j.ydbio.2012.03.021","article-title":"Zebrafish globin switching occurs in two developmental stages and is controlled by the LCR","volume":"366","author":"Ganis","year":"2012","journal-title":"Dev. Biol."},{"key":"2025040410161521300_bib52","doi-asserted-by":"publisher","first-page":"1860","DOI":"10.1038\/s41375-018-0130-0","article-title":"Cell of origin dictates aggression and stem cell number in acute lymphoblastic leukemia","volume":"32","author":"Garcia","year":"2018","journal-title":"Leukemia"},{"key":"2025040410161521300_bib53","doi-asserted-by":"publisher","first-page":"2687","DOI":"10.1182\/bloodadvances.2020002993","article-title":"Essential role for Gata2 in modulating lineage output from hematopoietic stem cells in zebrafish","volume":"5","author":"Gioacchino","year":"2021","journal-title":"Blood Adv."},{"key":"2025040410161521300_bib54","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0003194","article-title":"Cathepsin B in antigen-presenting cells controls mediators of the Th1 immune response during Leishmania major infection","volume":"8","author":"Gonzalez-Leal","year":"2014","journal-title":"PLoS Negl. Trop. Dis."},{"key":"2025040410161521300_bib55","doi-asserted-by":"publisher","first-page":"55","DOI":"10.1016\/j.immuni.2011.11.016","article-title":"The transcription factors T-bet and Eomes control key checkpoints of natural killer cell maturation","volume":"36","author":"Gordon","year":"2012","journal-title":"Immunity"},{"key":"2025040410161521300_bib56","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.11813","article-title":"Epigenetic regulation of hematopoiesis by DNA methylation","volume":"5","author":"Gore","year":"2016","journal-title":"Elife"},{"key":"2025040410161521300_bib57","doi-asserted-by":"publisher","first-page":"45","DOI":"10.1038\/s41592-019-0632-3","article-title":"Revealing dynamics of gene expression variability in cell state space","volume":"17","author":"Grun","year":"2020","journal-title":"Nat. Methods"},{"key":"2025040410161521300_bib58","doi-asserted-by":"publisher","first-page":"637","DOI":"10.1038\/nmeth.2930","article-title":"Validation of noise models for single-cell transcriptomics","volume":"11","author":"Grun","year":"2014","journal-title":"Nat. Methods"},{"key":"2025040410161521300_bib59","doi-asserted-by":"publisher","first-page":"266","DOI":"10.1016\/j.stem.2016.05.010","article-title":"De novo prediction of stem cell identity using single-cell transcriptome data","volume":"19","author":"Grun","year":"2016","journal-title":"Cell Stem Cell"},{"key":"2025040410161521300_bib60","doi-asserted-by":"publisher","first-page":"296","DOI":"10.1186\/s13059-019-1874-1","article-title":"Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression","volume":"20","author":"Hafemeister","year":"2019","journal-title":"Genome Biol."},{"key":"2025040410161521300_bib61","doi-asserted-by":"publisher","first-page":"3409","DOI":"10.1002\/j.1460-2075.1991.tb04905.x","article-title":"A novel lineage-specific nuclear factor regulates mb-1 gene transcription at the early stages of B cell differentiation","volume":"10","author":"Hagman","year":"1991","journal-title":"EMBO J."},{"key":"2025040410161521300_bib62","doi-asserted-by":"publisher","first-page":"915","DOI":"10.1007\/s002510000229","article-title":"Characterization of three isotypes of immunoglobulin light chains and T-cell antigen receptor \u03b1 in zebrafish","volume":"51","author":"Haire","year":"2000","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib63","doi-asserted-by":"publisher","first-page":"399","DOI":"10.1111\/jnc.12212","article-title":"Testican-3: A brain-specific proteoglycan member of the BM-40\/SPARC\/osteonectin family","volume":"125","author":"Hartmann","year":"2013","journal-title":"J. Neurochem."},{"key":"2025040410161521300_bib64","doi-asserted-by":"publisher","first-page":"1474","DOI":"10.1182\/bloodadvances.2021005459","article-title":"M-CSFR\/CSF1R signaling regulates myeloid fates in zebrafish via distinct action of its receptors and ligands","volume":"6","author":"Hason","year":"2022","journal-title":"Blood Adv."},{"key":"2025040410161521300_bib65","doi-asserted-by":"publisher","first-page":"740047","DOI":"10.3389\/fimmu.2021.740047","article-title":"Combination of surface markers for the reliable and comprehensive identification of human thymic epithelial cells by flow cytometry: Quantitation and transcriptional characterization of thymic stroma in a pediatric cohort","volume":"12","author":"Haunerdinger","year":"2021.","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib66","doi-asserted-by":"publisher","first-page":"2518","DOI":"10.1182\/blood-2013-02-486688","article-title":"Functions of flt3 in zebrafish hematopoiesis and its relevance to human acute myeloid leukemia","volume":"123","author":"He","year":"2014","journal-title":"Blood"},{"key":"2025040410161521300_bib67","doi-asserted-by":"publisher","first-page":"379","DOI":"10.1038\/nmeth.4662","article-title":"FateID infers cell fate bias in multipotent progenitors from single-cell RNA-seq data","volume":"15","author":"Herman","year":"2018","journal-title":"Nat. Methods"},{"key":"2025040410161521300_bib68","doi-asserted-by":"publisher","DOI":"10.1126\/sciimmunol.aau5265","article-title":"Single-cell transcriptional analysis reveals ILC-like cells in zebrafish","volume":"3","author":"Hernandez","year":"2018","journal-title":"Sci. Immunol."},{"key":"2025040410161521300_bib69","doi-asserted-by":"publisher","first-page":"298","DOI":"10.1016\/j.immuni.2011.12.016","article-title":"Intravital imaging of thymopoiesis reveals dynamic lympho-epithelial interactions","volume":"36","author":"Hess","year":"2012","journal-title":"Immunity"},{"key":"2025040410161521300_bib70","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0162358","article-title":"Antigen presenting properties of a myeloid dendritic-like cell in murine spleen","volume":"11","author":"Hey","year":"2016","journal-title":"PLoS One"},{"key":"2025040410161521300_bib71","doi-asserted-by":"publisher","first-page":"1097","DOI":"10.1126\/science.1164206","article-title":"Batf3 deficiency reveals a critical role for CD8\u03b1+ dendritic cells in cytotoxic T cell immunity","volume":"322","author":"Hildner","year":"2008","journal-title":"Science"},{"key":"2025040410161521300_bib72","doi-asserted-by":"publisher","first-page":"539","DOI":"10.1038\/ni1062","article-title":"The serine kinase phosphoinositide-dependent kinase 1 (PDK1) regulates T cell development","volume":"5","author":"Hinton","year":"2004","journal-title":"Nat. Immunol."},{"key":"2025040410161521300_bib73","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1038\/nri2476","article-title":"GATA3 and the T-cell lineage: Essential functions before and after T-helper-2-cell differentiation","volume":"9","author":"Ho","year":"2009","journal-title":"Nat. Rev. Immunol."},{"key":"2025040410161521300_bib74","doi-asserted-by":"publisher","first-page":"564","DOI":"10.3389\/fcell.2020.00564","article-title":"CD226: An emerging role in immunologic diseases","volume":"8","author":"Huang","year":"2020","journal-title":"Front. Cell Dev. Biol."},{"key":"2025040410161521300_bib75","doi-asserted-by":"publisher","first-page":"e93","DOI":"10.3324\/haematol.2016.153932","article-title":"Exome sequencing identified RPS15A as a novel causative gene for Diamond-Blackfan anemia","volume":"102","author":"Ikeda","year":"2017","journal-title":"Haematologica"},{"key":"2025040410161521300_bib76","doi-asserted-by":"publisher","first-page":"7060","DOI":"10.4049\/jimmunol.1003907","article-title":"Genetic evidence for an evolutionarily conserved role of IL-7 signaling in T cell development of zebrafish","volume":"186","author":"Iwanami","year":"2011","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib77","doi-asserted-by":"publisher","first-page":"274","DOI":"10.1038\/ni1310","article-title":"Positive regulation of immune cell function and inflammatory responses by phosphatase PAC-1","volume":"7","author":"Jeffrey","year":"2006","journal-title":"Nat. Immunol."},{"key":"2025040410161521300_bib78","doi-asserted-by":"publisher","first-page":"633","DOI":"10.1038\/ni.2587","article-title":"Identification of transcriptional regulators in the mouse immune system","volume":"14","author":"Jojic","year":"2013","journal-title":"Nat. Immunol."},{"key":"2025040410161521300_bib79","doi-asserted-by":"publisher","first-page":"239","DOI":"10.1038\/s41577-019-0238-0","article-title":"Thymic epithelial cell heterogeneity: TEC by TEC","volume":"20","author":"Kadouri","year":"2020","journal-title":"Nat. Rev. Immunol."},{"key":"2025040410161521300_bib80","doi-asserted-by":"publisher","first-page":"323","DOI":"10.1002\/dvdy.10388","article-title":"Runx3 is required for hematopoietic development in zebrafish","volume":"228","author":"Kalev-Zylinska","year":"2003","journal-title":"Dev. Dyn."},{"key":"2025040410161521300_bib81","doi-asserted-by":"publisher","first-page":"305","DOI":"10.1084\/jem.20030323","article-title":"Flt3 ligand regulates dendritic cell development from Flt3+ lymphoid and myeloid-committed progenitors to Flt3+ dendritic cells in vivo","volume":"198","author":"Karsunky","year":"2003","journal-title":"J. Exp. Med."},{"key":"2025040410161521300_bib82","doi-asserted-by":"publisher","first-page":"349","DOI":"10.1016\/j.cytogfr.2006.07.003","article-title":"Both integrated and differential regulation of components of the IL-2\/IL-2 receptor system","volume":"17","author":"Kim","year":"2006","journal-title":"Cytokine Growth Factor Rev."},{"key":"2025040410161521300_bib83","doi-asserted-by":"publisher","first-page":"180","DOI":"10.1186\/s12943-019-1110-3","article-title":"Molecular networks of FOXP family: Dual biologic functions, interplay with other molecules and clinical implications in cancer progression","volume":"18","author":"Kim","year":"2019","journal-title":"Mol. Cancer"},{"key":"2025040410161521300_bib84","doi-asserted-by":"publisher","first-page":"1147","DOI":"10.1182\/blood-2007-07-099499","article-title":"Live imaging of emerging hematopoietic stem cells and early thymus colonization","volume":"111","author":"Kissa","year":"2008","journal-title":"Blood"},{"key":"2025040410161521300_bib85","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1189\/jlb.0712349","article-title":"Myeloperoxidase: A front-line defender against phagocytosed microorganisms","volume":"93","author":"Klebanoff","year":"2013","journal-title":"J. Leukoc. Biol."},{"key":"2025040410161521300_bib86","doi-asserted-by":"publisher","first-page":"809","DOI":"10.1124\/mol.118.115329","article-title":"Atypical chemokine receptor 3 (ACKR3): A comprehensive overview of its expression and potential roles in the immune system","volume":"96","author":"Koenen","year":"2019","journal-title":"Mol. Pharmacol."},{"key":"2025040410161521300_bib87","doi-asserted-by":"publisher","first-page":"1171","DOI":"10.1126\/science.8356451","article-title":"Lack of N regions in antigen receptor variable region genes of TdT-deficient lymphocytes","volume":"261","author":"Komori","year":"1993","journal-title":"Science"},{"key":"2025040410161521300_bib88","doi-asserted-by":"publisher","first-page":"383","DOI":"10.1016\/j.cell.2011.03.028","article-title":"Ribosome-mediated specificity in Hox mRNA translation and vertebrate tissue patterning","volume":"145","author":"Kondrashov","year":"2011","journal-title":"Cell"},{"key":"2025040410161521300_bib89","doi-asserted-by":"publisher","first-page":"2877","DOI":"10.1101\/gad.212401","article-title":"A zebrafish nanos-related gene is essential for the development of primordial germ cells","volume":"15","author":"Koprunner","year":"2001","journal-title":"Genes Dev."},{"key":"2025040410161521300_bib90","doi-asserted-by":"publisher","first-page":"1860","DOI":"10.1101\/gr.192237.115","article-title":"Single-cell RNA-seq reveals changes in cell cycle and differentiation programs upon aging of hematopoietic stem cells","volume":"25","author":"Kowalczyk","year":"2015","journal-title":"Genome Res."},{"key":"2025040410161521300_bib91","doi-asserted-by":"publisher","first-page":"13814","DOI":"10.1073\/pnas.0906556106","article-title":"Dual requirement for the ETS transcription factors Fli-1 and Erg in hematopoietic stem cells and the megakaryocyte lineage","volume":"106","author":"Kruse","year":"2009","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib92","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.53403","article-title":"Zebrafish macrophage developmental arrest underlies depletion of microglia and reveals Csf1r-independent metaphocytes","volume":"9","author":"Kuil","year":"2020","journal-title":"Elife"},{"key":"2025040410161521300_bib93","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1002\/dvdy.10127","article-title":"Morphologic transformation of the thymus in developing zebrafish","volume":"225","author":"Lam","year":"2002","journal-title":"Dev. Dyn."},{"key":"2025040410161521300_bib94","doi-asserted-by":"publisher","first-page":"86","DOI":"10.1016\/j.it.2017.10.007","article-title":"Chemokine-Mediated choreography of thymocyte development and selection","volume":"39","author":"Lancaster","year":"2018","journal-title":"Trends Immunol."},{"key":"2025040410161521300_bib95","doi-asserted-by":"publisher","first-page":"7369","DOI":"10.1073\/pnas.0402248101","article-title":"In vivo tracking of T cell development, ablation, and engraftment in transgenic zebrafish","volume":"101","author":"Langenau","year":"2004","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib96","doi-asserted-by":"crossref","first-page":"5653","DOI":"10.4049\/jimmunol.152.12.5653","article-title":"Expression of the homotypic adhesion molecule E-cadherin by immature murine thymocytes and thymic epithelial cells","volume":"152","author":"Lee","year":"1994","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib97","doi-asserted-by":"publisher","first-page":"14","DOI":"10.1097\/BS9.0000000000000059","article-title":"Tcf12 balances the reconstitution and differentiation capacity of hematopoietic stem cell","volume":"3","author":"Liao","year":"2021","journal-title":"Blood Sci."},{"key":"2025040410161521300_bib98","doi-asserted-by":"publisher","first-page":"93","DOI":"10.1111\/j.0105-2896.2010.00902.x","article-title":"Granzyme A activates another way to die","volume":"235","author":"Lieberman","year":"2010","journal-title":"Immunol. Rev."},{"key":"2025040410161521300_bib99","doi-asserted-by":"publisher","first-page":"274","DOI":"10.1006\/dbio.2002.0657","article-title":"Zebrafish SPI-1 (PU.1) marks a site of myeloid development independent of primitive erythropoiesis: Implications for axial patterning","volume":"246","author":"Lieschke","year":"2002","journal-title":"Dev. Biol."},{"key":"2025040410161521300_bib100","doi-asserted-by":"publisher","first-page":"106","DOI":"10.1186\/s12935-015-0260-7","article-title":"Cyclooxygenase-2 promotes tumor growth and suppresses tumor immunity","volume":"15","author":"Liu","year":"2015","journal-title":"Cancer Cell Int."},{"key":"2025040410161521300_bib101","doi-asserted-by":"publisher","first-page":"1706","DOI":"10.4049\/jimmunol.1700552","article-title":"Zebrafish B cell development without a pre-B cell stage, revealed by CD79 fluorescence reporter transgenes","volume":"199","author":"Liu","year":"2017","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib102","doi-asserted-by":"publisher","DOI":"10.1126\/sciimmunol.aat1604","article-title":"Type 2 immunity: Expanding our view","volume":"3","author":"Lloyd","year":"2018","journal-title":"Sci. Immunol."},{"key":"2025040410161521300_bib103","doi-asserted-by":"publisher","first-page":"15850","DOI":"10.1073\/pnas.1000494107","article-title":"Identification of dendritic antigen-presenting cells in the zebrafish","volume":"107","author":"Lugo-Villarino","year":"2010","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib104","doi-asserted-by":"publisher","first-page":"43","DOI":"10.1016\/s0378-1119(01)00774-0","article-title":"Molecular cloning, genetic mapping, and expression analysis of four zebrafish c\/ebp genes","volume":"281","author":"Lyons","year":"2001","journal-title":"Gene"},{"key":"2025040410161521300_bib105","doi-asserted-by":"publisher","first-page":"21040","DOI":"10.1073\/pnas.1217021110","article-title":"Foxn1 maintains thymic epithelial cells to support T-cell development via mcm2 in zebrafish","volume":"109","author":"Ma","year":"2012","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib106","doi-asserted-by":"publisher","first-page":"966","DOI":"10.1016\/j.celrep.2015.12.082","article-title":"Single-cell RNA-sequencing reveals a continuous spectrum of differentiation in hematopoietic cells","volume":"14","author":"Macaulay","year":"2016","journal-title":"Cell Rep."},{"key":"2025040410161521300_bib107","doi-asserted-by":"publisher","DOI":"10.1101\/2021.07.19.452890","article-title":"Gata2a maintains cebpa and npm1a in haematopoietic stem cells to sustain lineage differentation and genome stability","author":"Mahony","year":"2021","journal-title":"bioRxiv"},{"key":"2025040410161521300_bib108","doi-asserted-by":"publisher","first-page":"243","DOI":"10.1177\/002215540405200212","article-title":"Expression of MAL2, an integral protein component of the machinery for basolateral-to-apical transcytosis, in human epithelia","volume":"52","author":"Marazuela","year":"2004","journal-title":"Journal Histochem. Cytochem."},{"key":"2025040410161521300_bib109","doi-asserted-by":"publisher","first-page":"1177","DOI":"10.1189\/jlb.0512231","article-title":"The mannose receptor","volume":"92","author":"Martinez-Pomares","year":"2012","journal-title":"J. Leukoc. Biol."},{"key":"2025040410161521300_bib110","doi-asserted-by":"publisher","first-page":"693","DOI":"10.1016\/j.bbrc.2007.12.130","article-title":"Cathepsins are required for Toll-like receptor 9 responses","volume":"367","author":"Matsumoto","year":"2008","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"2025040410161521300_bib111","doi-asserted-by":"publisher","first-page":"aaf7907","DOI":"10.1126\/science.aaf7907","article-title":"Whole-organism lineage tracing by combinatorial and cumulative genome editing","volume":"353","author":"McKenna","year":"2016","journal-title":"Science"},{"key":"2025040410161521300_bib112","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1007\/s00251-009-0407-6","article-title":"Characterization of the zebrafish T cell receptor \u03b2 locus","volume":"62","author":"Meeker","year":"2010","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib113","doi-asserted-by":"publisher","first-page":"230","DOI":"10.1126\/science.1135344","article-title":"Regulation of \u03b3\u03b4 versus \u03b1\u03b2 T lymphocyte differentiation by the transcription factor SOX13","volume":"315","author":"Melichar","year":"2007","journal-title":"Science"},{"key":"2025040410161521300_bib114","doi-asserted-by":"publisher","first-page":"24","DOI":"10.1182\/blood-2013-11-540278","article-title":"Whole-exome sequencing and functional studies identify RPS29 as a novel gene mutated in multicase Diamond-Blackfan anemia families","volume":"124","author":"Mirabello","year":"2014","journal-title":"Blood"},{"key":"2025040410161521300_bib115","doi-asserted-by":"publisher","first-page":"4768","DOI":"10.1038\/s41598-019-41298-8","article-title":"Regeneration associated transcriptional signature of retinal microglia and macrophages","volume":"9","author":"Mitchell","year":"2019","journal-title":"Sci. Rep."},{"key":"2025040410161521300_bib116","doi-asserted-by":"publisher","first-page":"128","DOI":"10.1111\/j.1742-4658.2009.07460.x","article-title":"Identification and characterization of the transcription factors involved in T-cell development, t-bet, stat6 and foxp3, within the zebrafish, Danio rerio","volume":"277","author":"Mitra","year":"2010","journal-title":"FEBS J."},{"key":"2025040410161521300_bib117","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.24197","article-title":"Insights into electrosensory organ development, physiology and evolution from a lateral line-enriched transcriptome","volume":"6","author":"Modrell","year":"2017","journal-title":"Elife"},{"key":"2025040410161521300_bib118","doi-asserted-by":"publisher","first-page":"536","DOI":"10.1038\/415536a","article-title":"Th1-specific cell surface protein Tim-3 regulates macrophage activation and severity of an autoimmune disease","volume":"415","author":"Monney","year":"2002","journal-title":"Nature"},{"key":"2025040410161521300_bib119","doi-asserted-by":"publisher","first-page":"979","DOI":"10.1084\/jem.20152013","article-title":"Single-cell transcriptional analysis of normal, aberrant, and malignant hematopoiesis in zebrafish","volume":"213","author":"Moore","year":"2016","journal-title":"J. Exp. Med."},{"key":"2025040410161521300_bib120","doi-asserted-by":"publisher","first-page":"1045","DOI":"10.1002\/JLB.2MR1219-233R","article-title":"\u03b1\u03b2 and \u03b3\u03b4 T cell receptors: Similar but different","volume":"107","author":"Morath","year":"2020","journal-title":"J. Leukoc. Biol."},{"key":"2025040410161521300_bib121","doi-asserted-by":"publisher","first-page":"963","DOI":"10.1016\/j.immuni.2006.10.015","article-title":"Tracing hematopoietic precursor migration to successive hematopoietic organs during zebrafish development","volume":"25","author":"Murayama","year":"2006","journal-title":"Immunity"},{"key":"2025040410161521300_bib122","doi-asserted-by":"publisher","first-page":"852","DOI":"10.1210\/mend.8.7.7984147","article-title":"Identification and characterization of an antisense RNA transcript (gfg) from the human basic fibroblast growth factor gene","volume":"8","author":"Murphy","year":"1994","journal-title":"Mol. Endocrinol."},{"key":"2025040410161521300_bib123","doi-asserted-by":"publisher","first-page":"3337","DOI":"10.1016\/j.febslet.2011.09.024","article-title":"Biochemical characterization of the very long-chain fatty acid elongase ELOVL7","volume":"585","author":"Naganuma","year":"2011","journal-title":"FEBS Lett."},{"key":"2025040410161521300_bib124","doi-asserted-by":"publisher","first-page":"20572","DOI":"10.1073\/pnas.1213069109","article-title":"Thymic nurse cells provide microenvironment for secondary T cell receptor \u03b1 rearrangement in cortical thymocytes","volume":"109","author":"Nakagawa","year":"2012","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib125","doi-asserted-by":"publisher","first-page":"1298","DOI":"10.1182\/blood-2002-11-3541","article-title":"Hmgb3: An HMG-box family member expressed in primitive hematopoietic cells that inhibits myeloid and B-cell differentiation","volume":"102","author":"Nemeth","year":"2003","journal-title":"Blood"},{"key":"2025040410161521300_bib126","doi-asserted-by":"publisher","first-page":"17129","DOI":"10.1073\/pnas.0906956106","article-title":"CCR7-mediated migration of developing thymocytes to the medulla is essential for negative selection to tissue-restricted antigens","volume":"106","author":"Nitta","year":"2009","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib127","doi-asserted-by":"publisher","first-page":"715","DOI":"10.1016\/j.immuni.2007.05.010","article-title":"The transcriptional regulation of B cell lineage commitment","volume":"26","author":"Nutt","year":"2007","journal-title":"Immunity"},{"key":"2025040410161521300_bib128","doi-asserted-by":"publisher","first-page":"1517","DOI":"10.1126\/science.2360047","article-title":"RAG-1 and RAG-2, adjacent genes that synergistically activate V(D)J recombination","volume":"248","author":"Oettinger","year":"1990","journal-title":"Science"},{"key":"2025040410161521300_bib129","doi-asserted-by":"publisher","first-page":"383","DOI":"10.1007\/s00251-008-0299-x","article-title":"Comprehensive clarification of two paralogous interleukin 4\/13 loci in teleost fish","volume":"60","author":"Ohtani","year":"2008","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib130","doi-asserted-by":"publisher","first-page":"11801","DOI":"10.1038\/s41598-020-68792-8","article-title":"Microfibril-associated glycoprotein 4 (Mfap4) regulates haematopoiesis in zebrafish","volume":"10","author":"Ong","year":"2020","journal-title":"Sci. Rep."},{"key":"2025040410161521300_bib131","doi-asserted-by":"publisher","first-page":"e1","DOI":"10.1182\/blood-2012-12-471029","article-title":"An evolutionarily conserved program of B-cell development and activation in zebrafish","volume":"122","author":"Page","year":"2013","journal-title":"Blood"},{"key":"2025040410161521300_bib132","doi-asserted-by":"publisher","first-page":"19131","DOI":"10.1074\/jbc.M110318200","article-title":"A novel Src homology 2 domain-containing molecule, Src-like adapter protein-2 (SLAP-2), which negatively regulates T cell receptor signaling","volume":"277","author":"Pandey","year":"2002","journal-title":"J. Biol. Chem."},{"key":"2025040410161521300_bib133","doi-asserted-by":"publisher","first-page":"820152","DOI":"10.3389\/fimmu.2022.820152","article-title":"Characterization of pipefish immune cell populations through single-cell transcriptomics","volume":"13","author":"Parker","year":"2022","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib134","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1038\/35040504","article-title":"Interleukin 21 and its receptor are involved in NK cell expansion and regulation of lymphocyte function","volume":"408","author":"Parrish-Novak","year":"2000","journal-title":"Nature"},{"key":"2025040410161521300_bib135","doi-asserted-by":"publisher","first-page":"157","DOI":"10.1006\/frne.1999.0183","article-title":"Somatostatin and its receptor family","volume":"20","author":"Patel","year":"1999","journal-title":"Front. Neuroendocrinol."},{"key":"2025040410161521300_bib136","doi-asserted-by":"publisher","first-page":"1041","DOI":"10.1126\/science.1090148","article-title":"Control of effector CD8+ T cell function by the transcription factor Eomesodermin","volume":"302","author":"Pearce","year":"2003","journal-title":"Science"},{"key":"2025040410161521300_bib137","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0099956","article-title":"RPLP1, a crucial ribosomal protein for embryonic development of the nervous system","volume":"9","author":"Perucho","year":"2014","journal-title":"PLoS One"},{"key":"2025040410161521300_bib138","doi-asserted-by":"publisher","first-page":"363","DOI":"10.1093\/bioinformatics\/btp677","article-title":"On the \u03b2-binomial model for analysis of spectral count data in label-free tandem mass spectrometry-based proteomics","volume":"26","author":"Pham","year":"2010","journal-title":"Bioinformatics"},{"key":"2025040410161521300_bib139","doi-asserted-by":"publisher","first-page":"735","DOI":"10.1016\/j.immuni.2004.05.004","article-title":"Heterogeneity among DN1 prothymocytes reveals multiple progenitors with different capacities to generate T cell and non-T cell lineages","volume":"20","author":"Porritt","year":"2004","journal-title":"Immunity"},{"key":"2025040410161521300_bib140","doi-asserted-by":"publisher","first-page":"979","DOI":"10.1038\/nmeth.4402","article-title":"Reversed graph embedding resolves complex single-cell trajectories","volume":"14","author":"Qiu","year":"2017","journal-title":"Nat. Methods"},{"key":"2025040410161521300_bib141","doi-asserted-by":"publisher","first-page":"2685","DOI":"10.1038\/s41596-018-0058-x","article-title":"Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR-Cas9 barcodes by scGESTALT","volume":"13","author":"Raj","year":"2018","journal-title":"Nat. Protoc."},{"key":"2025040410161521300_bib142","doi-asserted-by":"publisher","first-page":"442","DOI":"10.1038\/nbt.4103","article-title":"Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain","volume":"36","author":"Raj","year":"2018","journal-title":"Nat. Biotechnol."},{"key":"2025040410161521300_bib143","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.1008800","article-title":"Dual function of perivascular fibroblasts in vascular stabilization in zebrafish","volume":"16","author":"Rajan","year":"2020","journal-title":"PLoS Gen."},{"key":"2025040410161521300_bib144","doi-asserted-by":"publisher","first-page":"210120","DOI":"10.1098\/rsob.210120","article-title":"The intrinsically disorderly story of Ki-67","volume":"11","author":"Remnant","year":"2021","journal-title":"Open Biol."},{"key":"2025040410161521300_bib145","doi-asserted-by":"publisher","first-page":"391","DOI":"10.1101\/gad.349358.122","article-title":"Roles of vimentin in health and disease","volume":"36","author":"Ridge","year":"2022","journal-title":"Genes Dev."},{"key":"2025040410161521300_bib146","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1038\/nri2232","article-title":"Launching the T-cell-lineage developmental programme","volume":"8","author":"Rothenberg","year":"2008","journal-title":"Nat. Rev. Immunol."},{"key":"2025040410161521300_bib147","doi-asserted-by":"publisher","first-page":"1111","DOI":"10.1016\/s0198-8859(02)00749-8","article-title":"Plasmacytoid dendritic cells: The key to CpG","volume":"63","author":"Rothenfusser","year":"2002","journal-title":"Hum. Immunol."},{"key":"2025040410161521300_bib148","doi-asserted-by":"publisher","first-page":"2720","DOI":"10.3389\/fimmu.2019.02720","article-title":"RNAseq profiling of leukocyte populations in zebrafish larvae reveals a cxcl11 chemokine gene as a marker of macrophage polarization during mycobacterial infection","volume":"10","author":"Rougeot","year":"2019","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib149","doi-asserted-by":"publisher","first-page":"18467","DOI":"10.1073\/pnas.0506187102","article-title":"Depletion of minichromosome maintenance protein 5 in the zebrafish retina causes cell-cycle defect and apoptosis","volume":"102","author":"Ryu","year":"2005","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2025040410161521300_bib150","doi-asserted-by":"publisher","first-page":"110446","DOI":"10.1016\/j.celrep.2022.110446","article-title":"Creatine transport and creatine kinase activity is required for CD8(+) T cell immunity","volume":"38","author":"Samborska","year":"2022","journal-title":"Cell Rep."},{"key":"2025040410161521300_bib151","doi-asserted-by":"publisher","first-page":"1035","DOI":"10.1016\/0092-8674(89)90760-5","article-title":"The V(D)J recombination activating gene, RAG-1","volume":"59","author":"Schatz","year":"1989","journal-title":"Cell"},{"key":"2025040410161521300_bib152","doi-asserted-by":"publisher","first-page":"2463","DOI":"10.4049\/jimmunol.177.4.2463","article-title":"Conserved functions of ikaros in vertebrate lymphocyte development: Genetic evidence for distinct larval and adult phases of T cell development and two lineages of B cells in zebrafish","volume":"177","author":"Schorpp","year":"2006","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib153","doi-asserted-by":"publisher","first-page":"511","DOI":"10.1016\/0161-5890(96)00002-8","article-title":"A complement factor B-like cDNA clone from the zebrafish (Brachydanio rerio)","volume":"33","author":"Seeger","year":"1996","journal-title":"Mol. Immunol."},{"key":"2025040410161521300_bib154","doi-asserted-by":"publisher","first-page":"365","DOI":"10.1007\/s00251-016-0904-3","article-title":"Genomic organization of the zebrafish (Danio rerio) T cell receptor \u03b1\/\u03b4 locus and analysis of expressed products","volume":"68","author":"Seelye","year":"2016","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib155","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0117513","article-title":"Differential requirement for irf8 in formation of embryonic and adult macrophages in zebrafish","volume":"10","author":"Shiau","year":"2015","journal-title":"PLoS One"},{"key":"2025040410161521300_bib156","doi-asserted-by":"publisher","first-page":"626","DOI":"10.1016\/j.immuni.2016.08.013","article-title":"IRF8 transcription factor controls survival and function of terminally differentiated conventional and plasmacytoid dendritic cells, respectively","volume":"45","author":"Sichien","year":"2016","journal-title":"Immunity"},{"key":"2025040410161521300_bib157","doi-asserted-by":"publisher","first-page":"1380","DOI":"10.1002\/stem.1661","article-title":"Concise review: Evidence for CD34 as a common marker for diverse progenitors","volume":"32","author":"Sidney","year":"2014","journal-title":"Stem Cells"},{"key":"2025040410161521300_bib158","doi-asserted-by":"publisher","first-page":"2614","DOI":"10.1007\/s00018-004-4225-6","article-title":"Gelsolin superfamily proteins: Key regulators of cellular functions","volume":"61","author":"Silacci","year":"2004","journal-title":"Cell Mol. Life Sci."},{"key":"2025040410161521300_bib159","doi-asserted-by":"publisher","first-page":"1234","DOI":"10.1182\/blood.v88.4.1234.bloodjournal8841234","article-title":"PU.1 (Spi-1) and C\/EBP \u03b1 regulate the granulocyte colony-stimulating factor receptor promoter in myeloid cells","volume":"88","author":"Smith","year":"1996","journal-title":"Blood"},{"key":"2025040410161521300_bib160","doi-asserted-by":"publisher","first-page":"4578","DOI":"10.1093\/bioinformatics\/btab503","article-title":"UCSC cell browser: Visualize your single-cell data","volume":"37","author":"Speir","year":"2021","journal-title":"Bioinformatics"},{"key":"2025040410161521300_bib161","doi-asserted-by":"publisher","first-page":"a021857","DOI":"10.1101\/cshperspect.a021857","article-title":"CSF-1 receptor signaling in myeloid cells","volume":"6","author":"Stanley","year":"2014","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"2025040410161521300_bib162","doi-asserted-by":"publisher","first-page":"1888","DOI":"10.1016\/j.cell.2019.05.031","article-title":"Comprehensive integration of single-cell data","volume":"177","author":"Stuart","year":"2019","journal-title":"Cell"},{"key":"2025040410161521300_bib163","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1007\/s00251-011-0558-0","article-title":"Comparative genomic analysis of the proteasome \u03b25t subunit gene: Implications for the origin and evolution of thymoproteasomes","volume":"64","author":"Sutoh","year":"2012","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib164","doi-asserted-by":"publisher","first-page":"599","DOI":"10.1038\/nprot.2017.149","article-title":"Exponential scaling of single-cell RNA-seq in the past decade","volume":"13","author":"Svensson","year":"2018","journal-title":"Nat. Protoc."},{"key":"2025040410161521300_bib165","doi-asserted-by":"publisher","first-page":"2324","DOI":"10.1016\/j.molimm.2006.11.018","article-title":"Expression analysis of two Eomesodermin homologues in zebrafish lymphoid tissues and cells","volume":"44","author":"Takizawa","year":"2007","journal-title":"Mol. Immunol."},{"key":"2025040410161521300_bib166","doi-asserted-by":"publisher","first-page":"2875","DOI":"10.1084\/jem.20170976","article-title":"Dissecting hematopoietic and renal cell heterogeneity in adult zebrafish at single-cell resolution using RNA sequencing","volume":"214","author":"Tang","year":"2017","journal-title":"J. Exp. Med."},{"key":"2025040410161521300_bib167","doi-asserted-by":"publisher","first-page":"381","DOI":"10.1038\/nbt.2859","article-title":"The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells","volume":"32","author":"Trapnell","year":"2014","journal-title":"Nat. Biotechnol."},{"key":"2025040410161521300_bib168","doi-asserted-by":"publisher","first-page":"367","DOI":"10.1016\/s1074-7613(04)00084-6","article-title":"The use of zebrafish to understand immunity","volume":"20","author":"Trede","year":"2004","journal-title":"Immunity"},{"key":"2025040410161521300_bib169","doi-asserted-by":"publisher","first-page":"386","DOI":"10.2353\/ajpath.2007.070152","article-title":"Epithelial cell adhesion molecule: More than a carcinoma marker and adhesion molecule","volume":"171","author":"Trzpis","year":"2007","journal-title":"Am. J. Pathol."},{"key":"2025040410161521300_bib170","doi-asserted-by":"publisher","first-page":"221","DOI":"10.1038\/371221a0","article-title":"An early haematopoietic defect in mice lacking the transcription factor GATA-2","volume":"371","author":"Tsai","year":"1994","journal-title":"Nature"},{"key":"2025040410161521300_bib171","doi-asserted-by":"publisher","first-page":"3204","DOI":"10.1093\/hmg\/ddn216","article-title":"Deficiency of ribosomal protein S19 during early embryogenesis leads to reduction of erythrocytes in a zebrafish model of Diamond-Blackfan anemia","volume":"17","author":"Uechi","year":"2008","journal-title":"Hum. Mol. Gen."},{"key":"2025040410161521300_bib172","doi-asserted-by":"publisher","first-page":"493","DOI":"10.1084\/jem.20040643","article-title":"CCR7 signals are essential for cortex-medulla migration of developing thymocytes","volume":"200","author":"Ueno","year":"2004","journal-title":"J. Exp. Med."},{"key":"2025040410161521300_bib173","doi-asserted-by":"publisher","first-page":"475","DOI":"10.1038\/nature25739","article-title":"A molecular atlas of cell types and zonation in the brain vasculature","volume":"554","author":"Vanlandewijck","year":"2018","journal-title":"Nature"},{"key":"2025040410161521300_bib174","doi-asserted-by":"publisher","first-page":"43460","DOI":"10.1074\/jbc.M304078200","article-title":"Interaction protein for cytohesin exchange factors 1 (IPCEF1) binds cytohesin 2 and modifies its activity","volume":"278","author":"Venkateswarlu","year":"2003","journal-title":"J. Biol. Chem."},{"key":"2025040410161521300_bib175","doi-asserted-by":"publisher","first-page":"205","DOI":"10.1016\/s0014-5793(02)03232-5","article-title":"Human immune cells express ppMCH mRNA and functional MCHR1 receptor","volume":"527","author":"Verlaet","year":"2002","journal-title":"FEBS Lett."},{"key":"2025040410161521300_bib176","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0138949","article-title":"The macrophage-specific promoter mfap4 allows live, long-term analysis of macrophage behavior during mycobacterial infection in zebrafish","volume":"10","author":"Walton","year":"2015","journal-title":"PLoS One"},{"key":"2025040410161521300_bib177","doi-asserted-by":"publisher","first-page":"1337","DOI":"10.1038\/ni1523","article-title":"Natural killer cell trafficking in vivo requires a dedicated sphingosine 1-phosphate receptor","volume":"8","author":"Walzer","year":"2007","journal-title":"Nat. Immunol."},{"key":"2025040410161521300_bib178","doi-asserted-by":"publisher","first-page":"675","DOI":"10.3389\/fimmu.2016.00675","article-title":"Characterization of \u03b3\u03b4 T cells from zebrafish provides insights into their important role in adaptive humoral immunity","volume":"7","author":"Wan","year":"2016","journal-title":"Front. Immunol."},{"key":"2025040410161521300_bib179","doi-asserted-by":"publisher","first-page":"4028","DOI":"10.1182\/blood-2008-01-129049","article-title":"IRF8 regulates B-cell lineage specification, commitment, and differentiation","volume":"112","author":"Wang","year":"2008","journal-title":"Blood"},{"key":"2025040410161521300_bib180","doi-asserted-by":"publisher","first-page":"9164","DOI":"10.1038\/s41598-021-88676-9","article-title":"A novel prognostic biomarker LCP2 correlates with metastatic melanoma-infiltrating CD8(+) T cells","volume":"11","author":"Wang","year":"2021","journal-title":"Sci. Rep."},{"key":"2025040410161521300_bib181","doi-asserted-by":"publisher","first-page":"299","DOI":"10.1016\/j.immuni.2011.08.007","article-title":"Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types","volume":"35","author":"Wei","year":"2011","journal-title":"Immunity"},{"key":"2025040410161521300_bib182","doi-asserted-by":"publisher","first-page":"14954","DOI":"10.1074\/jbc.M112254200","article-title":"Identification and characterization of three members of the human metallocarboxypeptidase gene family","volume":"277","author":"Wei","year":"2002","journal-title":"J. Biol. Chem."},{"key":"2025040410161521300_bib183","doi-asserted-by":"publisher","first-page":"562","DOI":"10.1091\/mbc.e09-03-0217","article-title":"GRASP and IPCEF promote ARF-to-Rac signaling and cell migration by coordinating the association of ARNO\/cytohesin 2 with Dock180","volume":"21","author":"White","year":"2010","journal-title":"Mol. Biol. Cell"},{"key":"2025040410161521300_bib184","doi-asserted-by":"publisher","first-page":"394","DOI":"10.1007\/s002510050221","article-title":"Characterization and expression of the recombination activating genes (rag1 and rag2) of zebrafish","volume":"45","author":"Willett","year":"1997","journal-title":"Immunogenetics"},{"key":"2025040410161521300_bib185","doi-asserted-by":"publisher","first-page":"331","DOI":"10.1006\/dbio.1996.8446","article-title":"Expression of zebrafish rag genes during early development identifies the thymus","volume":"182","author":"Willett","year":"1997","journal-title":"Dev. Biol."},{"key":"2025040410161521300_bib186","doi-asserted-by":"publisher","first-page":"59","DOI":"10.1186\/s13059-019-1663-x","article-title":"PAGA: Graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells","volume":"20","author":"Wolf","year":"2019","journal-title":"Genome Biol."},{"key":"2025040410161521300_bib187","doi-asserted-by":"publisher","first-page":"3016","DOI":"10.1038\/s41467-018-05274-6","article-title":"A positive feedback loop bi-stably activates fibroblasts","volume":"9","author":"Yeo","year":"2018","journal-title":"Nat. Commun."},{"key":"2025040410161521300_bib188","doi-asserted-by":"publisher","first-page":"6442","DOI":"10.1158\/1078-0432.CCR-05-0267","article-title":"The stress-responsive gene GADD45G is a functional tumor suppressor, with its response to environmental stresses frequently disrupted epigenetically in multiple tumors","volume":"11","author":"Ying","year":"2005","journal-title":"Clin. Cancer Res."},{"key":"2025040410161521300_bib189","doi-asserted-by":"publisher","first-page":"1469","DOI":"10.1016\/s1286-4579(02)00029-1","article-title":"Zebrafish as an immunological model system","volume":"4","author":"Yoder","year":"2002","journal-title":"Microb. Infect."},{"key":"2025040410161521300_bib190","doi-asserted-by":"publisher","first-page":"154","DOI":"10.1016\/j.gene.2007.07.014","article-title":"Structural characteristics of zebrafish orthologs of adaptor molecules that associate with transmembrane immune receptors","volume":"401","author":"Yoder","year":"2007","journal-title":"Gene"},{"key":"2025040410161521300_bib191","doi-asserted-by":"publisher","first-page":"5091","DOI":"10.4049\/jimmunol.171.10.5091","article-title":"Adiponectin, a fat cell product, influences the earliest lymphocyte precursors in bone marrow cultures by activation of the cyclooxygenase-prostaglandin pathway in stromal cells","volume":"171","author":"Yokota","year":"2003","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib192","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0126378","article-title":"First demonstration of antigen induced cytokine expression by CD4-1+ lymphocytes in a poikilotherm: Studies in zebrafish (Danio rerio)","volume":"10","author":"Yoon","year":"2015","journal-title":"PLoS One"},{"key":"2025040410161521300_bib193","doi-asserted-by":"publisher","first-page":"giaa151","DOI":"10.1093\/gigascience\/giaa151","article-title":"SoupX removes ambient RNA contamination from droplet-based single-cell RNA sequencing data","volume":"9","author":"Young","year":"2020","journal-title":"Gigascience"},{"key":"2025040410161521300_bib194","doi-asserted-by":"publisher","first-page":"e1","DOI":"10.1182\/blood-2010-01-262873","article-title":"Macrophage-specific gene functions in Spi1-directed innate immunity","volume":"116","author":"Zakrzewska","year":"2010","journal-title":"Blood"},{"key":"2025040410161521300_bib195","doi-asserted-by":"publisher","first-page":"4605","DOI":"10.1182\/blood-2009-09-242065","article-title":"Platelet-derived thrombospondin-1 is a critical negative regulator and potential biomarker of angiogenesis","volume":"115","author":"Zaslavsky","year":"2010","journal-title":"Blood"},{"key":"2025040410161521300_bib196","doi-asserted-by":"publisher","first-page":"930","DOI":"10.1016\/j.immuni.2019.09.008","article-title":"Single-cell RNA sequencing resolves spatiotemporal development of pre-thymic lymphoid progenitors and thymus organogenesis in human embryos","volume":"51","author":"Zeng","year":"2019","journal-title":"Immunity"},{"key":"2025040410161521300_bib197","doi-asserted-by":"publisher","first-page":"575","DOI":"10.1016\/j.ccr.2013.09.018","article-title":"Sox4 is a key oncogenic target in C\/EBP\u03b1 mutant acute myeloid leukemia","volume":"24","author":"Zhang","year":"2013","journal-title":"Cancer Cell"},{"key":"2025040410161521300_bib198","doi-asserted-by":"publisher","first-page":"14049","DOI":"10.1038\/ncomms14049","article-title":"Massively parallel digital transcriptional profiling of single cells","volume":"8","author":"Zheng","year":"2017","journal-title":"Nat. Commun."},{"key":"2025040410161521300_bib199","doi-asserted-by":"publisher","first-page":"187","DOI":"10.1158\/0008-5472.CAN-16-1267-T","article-title":"PROTOCADHERIN 7 acts through SET and PP2A to potentiate MAPK signaling by EGFR and KRAS during lung tumorigenesis","volume":"77","author":"Zhou","year":"2017","journal-title":"Cancer Res."},{"key":"2025040410161521300_bib200","doi-asserted-by":"publisher","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":"2025040410161521300_bib201","doi-asserted-by":"publisher","first-page":"5571","DOI":"10.4049\/jimmunol.1102259","article-title":"Essential role of IL-4 and IL-4R\u03b1 interaction in adaptive immunity of zebrafish: Insight into the origin of Th2-like regulatory mechanism in ancient vertebrates","volume":"188","author":"Zhu","year":"2012","journal-title":"J. Immunol."},{"key":"2025040410161521300_bib202","doi-asserted-by":"publisher","first-page":"697","DOI":"10.1016\/j.fsi.2010.09.015","article-title":"Targeted annotation of immunoglobulin light chain (IgL) genes in zebrafish from BAC clones reveals kappa-like recombining\/deleting elements within IgL constant regions","volume":"31","author":"Zimmerman","year":"2011","journal-title":"Fish Shellfish Immunol."}],"container-title":["Journal of Experimental Medicine"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/rupress.org\/jem\/article-pdf\/doi\/10.1084\/jem.20220038\/1456909\/jem_20220038.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/rupress.org\/jem\/article-pdf\/doi\/10.1084\/jem.20220038\/1456909\/jem_20220038.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,4,4]],"date-time":"2025-04-04T15:58:32Z","timestamp":1743782312000},"score":1,"resource":{"primary":{"URL":"https:\/\/rupress.org\/jem\/article\/219\/9\/e20220038\/213385\/Single-cell-analyses-reveal-early-thymic"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,8,8]]},"references-count":202,"journal-issue":{"issue":"9","published-print":{"date-parts":[[2022,9,5]]}},"URL":"https:\/\/doi.org\/10.1084\/jem.20220038","relation":{},"ISSN":["0022-1007","1540-9538"],"issn-type":[{"value":"0022-1007","type":"print"},{"value":"1540-9538","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,8,8]]},"article-number":"e20220038"}}