{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,16]],"date-time":"2026-10-16T15:56:30Z","timestamp":1792166190044,"version":"4.4.0"},"reference-count":194,"publisher":"MDPI AG","issue":"5","license":[{"start":{"date-parts":[[2021,4,30]],"date-time":"2021-04-30T00:00:00Z","timestamp":1619740800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Cells"],"abstract":"<jats:p>Hematopoietic multipotent progenitors seed the thymus and then follow consecutive developmental stages until the formation of mature T cells. During this process, phenotypic changes of T cells entail stage-specific transcriptional programs that underlie the dynamic progression towards mature lymphocytes. Lineage-specific transcription factors are key drivers of T cell specification and act in conjunction with epigenetic regulators that have also been elucidated as crucial players in the establishment of regulatory networks necessary for proper T cell development. In this review, we summarize the activity of transcription factors and epigenetic regulators that together orchestrate the intricacies of early T cell development with a focus on regulation of T cell lineage commitment.<\/jats:p>","DOI":"10.3390\/cells10051074","type":"journal-article","created":{"date-parts":[[2021,4,30]],"date-time":"2021-04-30T10:53:29Z","timestamp":1619780009000},"page":"1074","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":11,"title":["The Route of Early T Cell Development: Crosstalk between Epigenetic and Transcription Factors"],"prefix":"10.3390","volume":"10","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2307-7513","authenticated-orcid":false,"given":"Veronica Della","family":"Chiara","sequence":"first","affiliation":[{"name":"Department of Human Genetics, Leiden University Medical Centre (LUMC), 2300 RC Leiden, The Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6557-6201","authenticated-orcid":false,"given":"Lucia","family":"Daxinger","sequence":"additional","affiliation":[{"name":"Department of Human Genetics, Leiden University Medical Centre (LUMC), 2300 RC Leiden, The Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1588-8519","authenticated-orcid":false,"given":"Frank J. T.","family":"Staal","sequence":"additional","affiliation":[{"name":"Department of Immunology, Leiden University Medical Center, 2333 ZA Leiden, The Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2021,4,30]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"3295","DOI":"10.1038\/sj.onc.1205318","article-title":"Hematopoietic cytokines, transcription factors and lineage commitment","volume":"21","author":"Zhu","year":"2002","journal-title":"Oncogene"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"125","DOI":"10.1016\/j.tig.2020.09.015","article-title":"Epigenetic Regulators as the Gatekeepers of Hematopoiesis","volume":"37","author":"Rodrigues","year":"2021","journal-title":"Trends Genet."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"572","DOI":"10.1016\/j.devcel.2016.01.024","article-title":"Dynamic Gene Regulatory Networks Drive Hematopoietic Specification and Differentiation","volume":"36","author":"Goode","year":"2016","journal-title":"Dev. Cell"},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"9","DOI":"10.1111\/imr.12200","article-title":"The role of chromatin dynamics in immune cell development","volume":"261","author":"Winter","year":"2014","journal-title":"Immunol. Rev."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"2021","DOI":"10.1101\/gad.284109.116","article-title":"Epigenetics of hematopoiesis and hematological malignancies","volume":"30","author":"Hu","year":"2016","journal-title":"Genes Dev."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"553","DOI":"10.1111\/cas.13168","article-title":"Epigenetics in normal and malignant hematopoiesis: An overview and update 2017","volume":"108","author":"Goyama","year":"2017","journal-title":"Cancer Sci."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"745","DOI":"10.1146\/annurev.immunol.25.022106.141538","article-title":"Ontogeny of the Hematopoietic System","volume":"25","author":"Cumano","year":"2007","journal-title":"Annu. Rev. Immunol."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1111\/j.1600-065X.2010.00956.x","article-title":"T-cell lineage determination","volume":"238","author":"Yang","year":"2010","journal-title":"Immunol. Rev."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"2515","DOI":"10.1084\/jem.20080829","article-title":"Delta-like 4 is the essential, nonredundant ligand for Notch1 during thymic T cell lineage commitment","volume":"205","author":"Koch","year":"2008","journal-title":"J. Exp. Med."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"62","DOI":"10.1016\/j.coisb.2019.10.012","article-title":"Dynamic control of the T-cell specification gene regulatory network","volume":"18","author":"Rothenberg","year":"2019","journal-title":"Curr. Opin. Syst. Biol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"467","DOI":"10.1016\/j.cell.2012.01.056","article-title":"Dynamic Transformations of Genome-wide Epigenetic Marking and Transcriptional Control Establish T Cell Identity","volume":"149","author":"Zhang","year":"2012","journal-title":"Cell"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"340","DOI":"10.1038\/nri.2017.146","article-title":"Epigenetic control of CD8+ T cell differentiation","volume":"18","author":"Henning","year":"2018","journal-title":"Nat. Rev. Immunol."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1111\/imr.12205","article-title":"The interface between transcriptional and epigenetic control of effector and memory CD8+T-cell differentiation","volume":"261","author":"Gray","year":"2014","journal-title":"Immunol. Rev."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1016\/j.biocel.2015.04.020","article-title":"Epigenetic dynamics during CD4+ T cells lineage commitment","volume":"67","author":"Rodriguez","year":"2015","journal-title":"Int. J. Biochem. Cell Biol."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"43","DOI":"10.1016\/j.coi.2020.01.002","article-title":"Epigenetics of T cell fate decision","volume":"63","author":"Pace","year":"2020","journal-title":"Curr. Opin. Immunol."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"590","DOI":"10.1038\/s41580-019-0159-6","article-title":"The diverse roles of DNA methylation in mammalian development and disease","volume":"20","author":"Greenberg","year":"2019","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"R305","DOI":"10.1016\/S0960-9822(06)00144-8","article-title":"DNA methylation: A molecular lock","volume":"7","author":"Siegfried","year":"1997","journal-title":"Curr. Biol."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"309","DOI":"10.1016\/0959-437X(95)80044-1","article-title":"CpG islands and genes","volume":"5","author":"Cross","year":"1995","journal-title":"Curr. Opin. Genet. Dev."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"484","DOI":"10.1038\/nrg3230","article-title":"Functions of DNA methylation: Islands, start sites, gene bodies and beyond","volume":"13","author":"Jones","year":"2012","journal-title":"Nat. Rev. Genet."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"247","DOI":"10.1016\/S0092-8674(00)81656-6","article-title":"DNA Methyltransferases Dnmt3a and Dnmt3b Are Essential for De Novo Methylation and Mammalian Development","volume":"99","author":"Okano","year":"1999","journal-title":"Cell"},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"48350","DOI":"10.1074\/jbc.M403427200","article-title":"The Dnmt1 DNA-(cytosine-C5)-methyltransferase Methylates DNA Processively with High Preference for Hemimethylated Target Sites","volume":"279","author":"Hermann","year":"2004","journal-title":"J. Biol. Chem."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"930","DOI":"10.1126\/science.1170116","article-title":"Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1","volume":"324","author":"Tahiliani","year":"2009","journal-title":"Science"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"627","DOI":"10.1016\/j.bbagrm.2014.03.001","article-title":"Interpreting the language of histone and DNA modifications","volume":"1839","author":"Rothbart","year":"2014","journal-title":"Biochim. Biophys. Acta"},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"a025064","DOI":"10.1101\/cshperspect.a025064","article-title":"Comprehensive Catalog of Currently Documented Histone Modifications","volume":"7","author":"Zhao","year":"2015","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"21931","DOI":"10.1073\/pnas.1016071107","article-title":"Histone H3K27ac separates active from poised enhancers and predicts developmental state","volume":"107","author":"Creyghton","year":"2010","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1038\/ng0307-284","article-title":"Enhancing genome annotation with chromatin","volume":"39","year":"2007","journal-title":"Nat. Genet."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"311","DOI":"10.1038\/ng1966","article-title":"Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome","volume":"39","author":"Heintzman","year":"2007","journal-title":"Nat. Genet."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.molcel.2007.09.011","article-title":"Facultative Heterochromatin: Is There a Distinctive Molecular Signature?","volume":"28","author":"Trojer","year":"2007","journal-title":"Mol. Cell"},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"2024","DOI":"10.1016\/j.febslet.2010.11.010","article-title":"Histone arginine methylation","volume":"585","author":"Bedford","year":"2011","journal-title":"FEBS Lett."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1186\/1747-1028-3-8","article-title":"The many faces of ubiquitinated histone H2A: Insights from the DUBs","volume":"3","author":"Vissers","year":"2008","journal-title":"Cell Div."},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"483","DOI":"10.1038\/ncb1712","article-title":"Monoubiquitinated H2B is associated with the transcribed region of highly expressed genes in human cells","volume":"10","author":"Minsky","year":"2008","journal-title":"Nat. Cell Biol."},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"407","DOI":"10.1038\/nrm.2017.26","article-title":"Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes","volume":"18","author":"Clapier","year":"2017","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"474","DOI":"10.1038\/nature08911","article-title":"Chromatin remodelling during development","volume":"463","author":"Ho","year":"2010","journal-title":"Nature"},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"490","DOI":"10.1016\/j.cell.2013.07.011","article-title":"Mechanisms and Functions of ATP-Dependent Chromatin-Remodeling Enzymes","volume":"154","author":"Narlikar","year":"2013","journal-title":"Cell"},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"299","DOI":"10.3390\/genes6020299","article-title":"Chromatin Remodelers: From Function to Dysfunction","volume":"6","author":"Manelyte","year":"2015","journal-title":"Genes"},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1146\/annurev.biochem.77.062706.153223","article-title":"The Biology of Chromatin Remodeling Complexes","volume":"78","author":"Clapier","year":"2009","journal-title":"Annu. Rev. Biochem."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"2008","DOI":"10.4049\/jimmunol.178.4.2008","article-title":"Selective Thymus Settling Regulated by Cytokine and Chemokine Receptors","volume":"178","author":"Schwarz","year":"2007","journal-title":"J. Immunol."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"953","DOI":"10.1038\/ni1101","article-title":"Circulating hematopoietic progenitors with T lineage potential","volume":"5","author":"Schwarz","year":"2004","journal-title":"Nat. Immunol."},{"key":"ref_39","doi-asserted-by":"crossref","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":"ref_40","doi-asserted-by":"crossref","first-page":"547","DOI":"10.1016\/S1074-7613(00)80054-0","article-title":"Deficient T Cell Fate Specification in Mice with an Induced Inactivation of Notch1","volume":"10","author":"Radtke","year":"1999","journal-title":"Immunity"},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"1456","DOI":"10.1038\/s41590-019-0518-7","article-title":"RBPJ-dependent Notch signaling initiates the T cell program in a subset of thymus-seeding progenitors","volume":"20","author":"Chen","year":"2019","journal-title":"Nat. Immunol."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"1715","DOI":"10.1084\/jem.20042524","article-title":"New insights on human T cell development by quantitative T cell receptor gene rearrangement studies and gene expression profiling","volume":"201","author":"Dik","year":"2005","journal-title":"J. Exp. Med."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1111\/j.1600-065X.1984.tb01118.x","article-title":"T Cell Development in the Adult Murine Thymus: Changes in the Expression of the Surface Antigens Ly2, L3T4 and B2A2 during Development from Early Precursor Cells to Emigrants","volume":"82","author":"Scollay","year":"1984","journal-title":"Immunol. Rev."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"3131","DOI":"10.1182\/blood-2005-08-3412","article-title":"Human thymus contains multipotent progenitors with T\/B lymphoid, myeloid, and erythroid lineage potential","volume":"107","author":"Weerkamp","year":"2006","journal-title":"Blood"},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"4244","DOI":"10.4049\/jimmunol.150.10.4244","article-title":"A developmental pathway involving four phenotypically and functionally distinct subsets of CD3-CD4-CD8- triple-negative adult mouse thymocytes defined by CD44 and CD25 expression","volume":"150","author":"Godfrey","year":"1993","journal-title":"J. Immunol."},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"1617","DOI":"10.1084\/jem.190.11.1617","article-title":"Commitment of Common T\/Natural Killer (Nk) Progenitors to Unipotent T and Nk Progenitors in the Murine Fetal Thymus Revealed by a Single Progenitor Assay","volume":"190","author":"Ikawa","year":"1999","journal-title":"J. Exp. Med."},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"768","DOI":"10.1038\/nature06839","article-title":"Adult T-cell progenitors retain myeloid potential","volume":"452","author":"Wada","year":"2008","journal-title":"Nature"},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"321","DOI":"10.1016\/j.cels.2019.09.008","article-title":"Single-Cell Analysis Reveals Regulatory Gene Expression Dynamics Leading to Lineage Commitment in Early T Cell Development","volume":"9","author":"Zhou","year":"2019","journal-title":"Cell Syst."},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"3699","DOI":"10.4049\/jimmunol.179.6.3699","article-title":"T Cell Lineage Determination Precedes the Initiation of TCR\u03b2 Gene Rearrangement","volume":"179","author":"Masuda","year":"2007","journal-title":"J. Immunol."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"284","DOI":"10.4049\/jimmunol.1000679","article-title":"Fine-Scale Staging of T Cell Lineage Commitment in Adult Mouse Thymus","volume":"185","author":"Yui","year":"2010","journal-title":"J. Immunol."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1016\/j.immuni.2005.11.012","article-title":"Developmental and Molecular Characterization of Emerging \u03b2- and \u03b3\u03b4-Selected Pre-T Cells in the Adult Mouse Thymus","volume":"24","author":"Taghon","year":"2006","journal-title":"Immunity"},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"83","DOI":"10.1016\/1074-7613(94)90102-3","article-title":"T cell receptor \u03b2 chain gene rearrangement and selection during thymocyte development in adult mice","volume":"1","author":"Dudley","year":"1994","journal-title":"Immunity"},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"1355","DOI":"10.1084\/jem.179.4.1355","article-title":"Two waves of recombinase gene expression in developing thymocytes","volume":"179","author":"Wilson","year":"1994","journal-title":"J. Exp. Med."},{"key":"ref_54","first-page":"22","article-title":"Structure and function of the T3\/T cell receptor complex","volume":"77","author":"Terhorst","year":"1985","journal-title":"Behring Inst. Mitt."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1084\/jem.190.1.141","article-title":"Early T Cell Receptor \u03b2 Gene Expression Is Regulated by the Pre-T Cell Receptor\u2013CD3 Complex","volume":"190","author":"Aifantis","year":"1999","journal-title":"J. Exp. Med."},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"209","DOI":"10.1093\/intimm\/2.3.209","article-title":"Ontogeny of a novel CD4+CD8\u2212CD3\u2212thymocyte subpopulation: A comparison with CD4\u2212 CD8+ CD3\u2212thymocytes","volume":"2","author":"Hugo","year":"1990","journal-title":"Int. Immunol."},{"key":"ref_57","doi-asserted-by":"crossref","first-page":"331","DOI":"10.1016\/S1074-7613(00)80259-9","article-title":"Defect in Rearrangement of the Most 5\u2032 TCR\u2013J\u03b1 Following Targeted Deletion of T Early \u03b1 (TEA): Implications for TCR \u03b1 Locus Accessibility","volume":"5","author":"Villey","year":"1996","journal-title":"Immunity"},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"523","DOI":"10.1146\/annurev.immunol.16.1.523","article-title":"Ligand recognition by alpha beta T cell receptors","volume":"16","author":"Davis","year":"1998","journal-title":"Annu. Rev. Immunol."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1038\/372100a0","article-title":"T-cell apoptosis detected in situ during positive and negative selection in the thymus","volume":"372","author":"Surh","year":"1994","journal-title":"Nature"},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"2265","DOI":"10.4049\/jimmunol.181.4.2265","article-title":"Thymic Emigration: When and How T Cells Leave Home","volume":"181","author":"Weinreich","year":"2008","journal-title":"J. Immunol."},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"162","DOI":"10.1038\/s41577-020-00426-6","article-title":"How transcription factors drive choice of the T cell fate","volume":"21","author":"Hosokawa","year":"2021","journal-title":"Nat. Rev. Immunol."},{"key":"ref_62","doi-asserted-by":"crossref","first-page":"20060","DOI":"10.1073\/pnas.1110230108","article-title":"T-cell factor 1 is a gatekeeper for T-cell specification in response to Notch signaling","volume":"108","author":"Germar","year":"2011","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"63","DOI":"10.1038\/nature10279","article-title":"A critical role for TCF-1 in T-lineage specification and differentiation","volume":"476","author":"Weber","year":"2011","journal-title":"Nature"},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"89","DOI":"10.1126\/science.1188989","article-title":"An Early T Cell Lineage Commitment Checkpoint Dependent on the Transcription Factor Bcl11b","volume":"329","author":"Li","year":"2010","journal-title":"Science"},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"2987","DOI":"10.1084\/jem.20090934","article-title":"GATA-3 is required for early T lineage progenitor development","volume":"206","author":"Hosoya","year":"2009","journal-title":"J. Exp. Med."},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1016\/S1074-7613(02)00277-7","article-title":"Constitutive Expression of PU.1 in Fetal Hematopoietic Progenitors Blocks T Cell Development at the Pro-T Cell Stage","volume":"16","author":"Anderson","year":"2002","journal-title":"Immunity"},{"key":"ref_67","doi-asserted-by":"crossref","unstructured":"Shin, B., Hosokawa, H., Romero-Wolf, M., Zhou, W., Masuhara, K., Tobin, V.R., Levanon, D., Groner, Y., and Rothenberg, E.V. (2021). Runx1 and Runx3 drive progenitor to T-lineage transcriptome conversion in mouse T cell commitment via dynamic genomic site switching. Proc. Natl. Acad. Sci. USA, 118.","DOI":"10.1073\/pnas.2019655118"},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"eaaw7313","DOI":"10.1126\/sciadv.aaw7313","article-title":"Functional definition of a transcription factor hierarchy regulating T cell lineage commitment","volume":"6","author":"Famili","year":"2020","journal-title":"Sci. Adv."},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1016\/j.immuni.2018.01.012","article-title":"Lineage-Determining Transcription Factor TCF-1 Initiates the Epigenetic Identity of T Cells","volume":"48","author":"Johnson","year":"2018","journal-title":"Immunity"},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"956","DOI":"10.1038\/ni.3514","article-title":"Asynchronous combinatorial action of four regulatory factors activates Bcl11b for T cell commitment","volume":"17","author":"Kueh","year":"2016","journal-title":"Nat. Immunol."},{"key":"ref_71","doi-asserted-by":"crossref","unstructured":"Tiemessen, M.M., Baert, M.R., Schonewille, T., Brugman, M.H., Famili, F., Salvatori, D.C., Meijerink, J.P., Ozbek, U., Clevers, H., and Van Dongen, J.J. (2012). The Nuclear Effector of Wnt-Signaling, Tcf1, Functions as a T-Cell\u2013Specific Tumor Suppressor for Development of Lymphomas. PLoS Biol., 10.","DOI":"10.1371\/journal.pbio.1001430"},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1002\/1521-4141(200101)31:1<285::AID-IMMU285>3.0.CO;2-D","article-title":"Wnt signaling is required for thymocyte development and activates Tcf-1 mediated transcription","volume":"31","author":"Staal","year":"2001","journal-title":"Eur. J. Immunol."},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"233","DOI":"10.1016\/j.it.2014.04.002","article-title":"GATA3: A master of many trades in immune regulation","volume":"35","author":"Wan","year":"2014","journal-title":"Trends Immunol."},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"212","DOI":"10.1111\/j.0105-2896.2006.00355.x","article-title":"Progression of regulatory gene expression states in fetal and adult pro-T-cell development","volume":"209","author":"Yui","year":"2006","journal-title":"Immunol. Rev."},{"key":"ref_75","doi-asserted-by":"crossref","first-page":"1207","DOI":"10.1242\/dev.088559","article-title":"Architecture of a lymphomyeloid developmental switch controlled by PU.1, Notch and Gata3","volume":"140","author":"Rothenberg","year":"2013","journal-title":"Development"},{"key":"ref_76","doi-asserted-by":"crossref","first-page":"977","DOI":"10.1002\/eji.200737688","article-title":"Notch signaling is necessary for GATA3 function in the initiation of T cell development","volume":"38","author":"Hozumi","year":"2008","journal-title":"Eur. J. Immunol."},{"key":"ref_77","doi-asserted-by":"crossref","first-page":"1749","DOI":"10.1182\/blood-2012-06-440065","article-title":"GATA-3 promotes T-cell specification by repressing B-cell potential in pro\u2013T cells in mice","volume":"121","author":"Lemaitre","year":"2013","journal-title":"Blood"},{"key":"ref_78","doi-asserted-by":"crossref","first-page":"845","DOI":"10.1038\/ni1486","article-title":"Mast cell lineage diversion of T lineage precursors by the essential T cell transcription factor GATA-3","volume":"8","author":"Taghon","year":"2007","journal-title":"Nat. Immunol."},{"key":"ref_79","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1126\/science.1188995","article-title":"An Essential Developmental Checkpoint for Production of the T Cell Lineage","volume":"329","author":"Ikawa","year":"2010","journal-title":"Science"},{"key":"ref_80","doi-asserted-by":"crossref","first-page":"533","DOI":"10.1038\/ni927","article-title":"Bcl11b is required for differentiation and survival of \u03b1\u03b2 T lymphocytes","volume":"4","author":"Wakabayashi","year":"2003","journal-title":"Nat. Immunol."},{"key":"ref_81","doi-asserted-by":"crossref","first-page":"85","DOI":"10.1126\/science.1188063","article-title":"Reprogramming of T Cells to Natural Killer-Like Cells upon Bcl11b Deletion","volume":"329","author":"Li","year":"2010","journal-title":"Science"},{"key":"ref_82","doi-asserted-by":"crossref","first-page":"5800","DOI":"10.1073\/pnas.1610617114","article-title":"Bcl11b and combinatorial resolution of cell fate in the T-cell gene regulatory network","volume":"114","author":"Longabaugh","year":"2017","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_83","doi-asserted-by":"crossref","first-page":"1427","DOI":"10.1038\/s41590-018-0238-4","article-title":"Bcl11b sets pro-T cell fate by site-specific cofactor recruitment and by repressing Id2 and Zbtb16","volume":"19","author":"Hosokawa","year":"2018","journal-title":"Nat. Immunol."},{"key":"ref_84","doi-asserted-by":"crossref","first-page":"354","DOI":"10.1016\/j.immuni.2015.07.005","article-title":"Transcription Factor Bcl11b Controls Identity and Function of Mature Type 2 Innate Lymphoid Cells","volume":"43","author":"Califano","year":"2015","journal-title":"Immunity"},{"key":"ref_85","doi-asserted-by":"crossref","first-page":"378","DOI":"10.1016\/j.immuni.2014.01.012","article-title":"The Transcription Factor GATA3 Is Critical for the Development of All IL-7R\u03b1-Expressing Innate Lymphoid Cells","volume":"40","author":"Yagi","year":"2014","journal-title":"Immunity"},{"key":"ref_86","doi-asserted-by":"crossref","first-page":"1150","DOI":"10.1038\/s41590-019-0445-7","article-title":"The transcription factor TCF-1 enforces commitment to the innate lymphoid cell lineage","volume":"20","author":"Harly","year":"2019","journal-title":"Nat. Immunol."},{"key":"ref_87","doi-asserted-by":"crossref","unstructured":"Hosokawa, H., Romero-Wolf, M., Yang, Q., Motomura, Y., Levanon, D., Groner, Y., Moro, K., Tanaka, T., and Rothenberg, E.V. (2020). Cell type\u2013specific actions of Bcl11b in early T-lineage and group 2 innate lymphoid cells. J. Exp. Med., 217.","DOI":"10.1084\/jem.20190972"},{"key":"ref_88","doi-asserted-by":"crossref","first-page":"2403","DOI":"10.1101\/gad.12.15.2403","article-title":"PU.1 induces myeloid lineage commitment in multipotent hematopoietic progenitors","volume":"12","author":"Nerlov","year":"1998","journal-title":"Genes Dev."},{"key":"ref_89","doi-asserted-by":"crossref","first-page":"6057","DOI":"10.1073\/pnas.0711961105","article-title":"PU.1 and C\/EBPalpha\/beta convert fibroblasts into macrophage-like cells","volume":"105","author":"Feng","year":"2008","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_90","doi-asserted-by":"crossref","first-page":"1056","DOI":"10.1016\/j.exphem.2007.04.005","article-title":"Reduction in PU.1 activity results in a block to B-cell development, abnormal myeloid proliferation, and neonatal lethality","volume":"35","author":"Houston","year":"2007","journal-title":"Exp. Hematol."},{"key":"ref_91","doi-asserted-by":"crossref","first-page":"628","DOI":"10.1016\/j.immuni.2010.05.005","article-title":"The Transcription Factor PU.1 Controls Dendritic Cell Development and Flt3 Cytokine Receptor Expression in a Dose-Dependent Manner","volume":"32","author":"Carotta","year":"2010","journal-title":"Immunity"},{"key":"ref_92","doi-asserted-by":"crossref","first-page":"832","DOI":"10.1101\/gad.259879.115","article-title":"Regulation of early T-lineage gene expression and developmental progression by the progenitor cell transcription factor PU.1","volume":"29","author":"Champhekar","year":"2015","journal-title":"Genes Dev."},{"key":"ref_93","doi-asserted-by":"crossref","first-page":"903","DOI":"10.1084\/jem.184.3.903","article-title":"Thymic dendritic cell precursors: Relationship to the T lymphocyte lineage and phenotype of the dendritic cell progeny","volume":"184","author":"Wu","year":"1996","journal-title":"J. Exp. Med."},{"key":"ref_94","doi-asserted-by":"crossref","first-page":"5964","DOI":"10.4049\/jimmunol.166.10.5964","article-title":"Generation of Macrophages from Early T Progenitors In Vitro","volume":"166","author":"Lee","year":"2001","journal-title":"J. Immunol."},{"key":"ref_95","doi-asserted-by":"crossref","first-page":"1930","DOI":"10.1182\/blood-2004-08-3087","article-title":"The earliest subpopulation of mouse thymocytes contains potent T, significant macrophage, and natural killer cell but no B-lymphocyte potential","volume":"105","author":"Balciunaite","year":"2005","journal-title":"Blood"},{"key":"ref_96","doi-asserted-by":"crossref","first-page":"412","DOI":"10.1038\/ni.2255","article-title":"The earliest thymic T cell progenitors sustain B cell and myeloid lineage potential","volume":"13","author":"Luc","year":"2012","journal-title":"Nat. Immunol."},{"key":"ref_97","doi-asserted-by":"crossref","first-page":"764","DOI":"10.1038\/nature06840","article-title":"The earliest thymic progenitors for T cells possess myeloid lineage potential","volume":"452","author":"Bell","year":"2008","journal-title":"Nature"},{"key":"ref_98","doi-asserted-by":"crossref","first-page":"11993","DOI":"10.1073\/pnas.0601188103","article-title":"Notch\/Delta signaling constrains reengineering of pro-T cells by PU.1","volume":"103","author":"Franco","year":"2006","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_99","doi-asserted-by":"crossref","first-page":"731","DOI":"10.1016\/j.immuni.2006.09.011","article-title":"Reprogramming of Committed T Cell Progenitors to Macrophages and Dendritic Cells by C\/EBP\u03b1 and PU.1 Transcription Factors","volume":"25","author":"Laiosa","year":"2006","journal-title":"Immunity"},{"key":"ref_100","doi-asserted-by":"crossref","first-page":"6184","DOI":"10.4049\/jimmunol.174.10.6184","article-title":"Enforced Expression of Spi-B Reverses T Lineage Commitment and Blocks \u03b2-Selection","volume":"174","author":"Lefebvre","year":"2005","journal-title":"J. Immunol."},{"key":"ref_101","doi-asserted-by":"crossref","first-page":"782","DOI":"10.1016\/j.immuni.2018.09.019","article-title":"Transcription Factor PU.1 Represses and Activates Gene Expression in Early T Cells by Redirecting Partner Transcription Factor Binding","volume":"49","author":"Hosokawa","year":"2018","journal-title":"Immunity"},{"key":"ref_102","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1016\/j.immuni.2005.01.012","article-title":"Dual Functions of Runx Proteins for Reactivating CD8 and Silencing CD4 at the Commitment Process into CD8 Thymocytes","volume":"22","author":"Sato","year":"2005","journal-title":"Immunity"},{"key":"ref_103","doi-asserted-by":"crossref","first-page":"1945","DOI":"10.1084\/jem.20070133","article-title":"The role of the Runx transcription factors in thymocyte differentiation and in homeostasis of naive T cells","volume":"204","author":"Egawa","year":"2007","journal-title":"J. Exp. Med."},{"key":"ref_104","doi-asserted-by":"crossref","first-page":"621","DOI":"10.1016\/S0092-8674(02)01111-X","article-title":"Differential Requirements for Runx Proteins in CD4 Repression and Epigenetic Silencing during T Lymphocyte Development","volume":"111","author":"Taniuchi","year":"2002","journal-title":"Cell"},{"key":"ref_105","doi-asserted-by":"crossref","first-page":"480","DOI":"10.1182\/blood-2007-10-120261","article-title":"Core binding factors are necessary for natural killer cell development and cooperate with Notch signaling during T-cell specification","volume":"112","author":"Guo","year":"2008","journal-title":"Blood"},{"key":"ref_106","doi-asserted-by":"crossref","first-page":"444","DOI":"10.1016\/j.ydbio.2008.10.021","article-title":"Transcription factor expression dynamics of early T-lymphocyte specification and commitment","volume":"325","author":"Butler","year":"2009","journal-title":"Dev. Biol."},{"key":"ref_107","doi-asserted-by":"crossref","first-page":"231","DOI":"10.1016\/j.immuni.2007.12.013","article-title":"Thymocyte Proliferation Induced by Pre-T Cell Receptor Signaling Is Maintained through Polycomb Gene Product Bmi-1-Mediated Cdkn2a Repression","volume":"28","author":"Miyazaki","year":"2008","journal-title":"Immunity"},{"key":"ref_108","doi-asserted-by":"crossref","first-page":"2507","DOI":"10.4049\/jimmunol.174.5.2507","article-title":"Polycomb Group Gene mel-18 Regulates Early T Progenitor Expansion by Maintaining the Expression of Hes-1, a Target of the Notch Pathway","volume":"174","author":"Miyazaki","year":"2005","journal-title":"J. Immunol."},{"key":"ref_109","doi-asserted-by":"crossref","first-page":"2475","DOI":"10.1101\/gad.290593.116","article-title":"Conversion of T cells to B cells by inactivation of polycomb-mediated epigenetic suppression of the B-lineage program","volume":"30","author":"Ikawa","year":"2016","journal-title":"Genes Dev."},{"key":"ref_110","doi-asserted-by":"crossref","first-page":"eaal1953","DOI":"10.1126\/sciimmunol.aal1953","article-title":"Tumor suppressor BAP1 is essential for thymic development and proliferative responses of T lymphocytes","volume":"3","author":"Arenzana","year":"2018","journal-title":"Sci. Immunol."},{"key":"ref_111","doi-asserted-by":"crossref","first-page":"e2260","DOI":"10.1038\/cddis.2016.162","article-title":"Mysm1 is required for interferon regulatory factor expression in maintaining HSC quiescence and thymocyte development","volume":"7","author":"Huang","year":"2016","journal-title":"Cell Death Dis."},{"key":"ref_112","doi-asserted-by":"crossref","first-page":"1370","DOI":"10.1182\/blood-2011-05-352666","article-title":"The critical role of histone H2A-deubiquitinase Mysm1 in hematopoiesis and lymphocyte differentiation","volume":"119","author":"Nijnik","year":"2012","journal-title":"Blood"},{"key":"ref_113","doi-asserted-by":"crossref","first-page":"1451","DOI":"10.1038\/cdd.2014.231","article-title":"Interplay of H2A deubiquitinase 2A-DUB\/Mysm1 and the p19ARF\/p53 axis in hematopoiesis, early T-cell development and tissue differentiation","volume":"22","author":"Gatzka","year":"2015","journal-title":"Cell Death Differ."},{"key":"ref_114","doi-asserted-by":"crossref","first-page":"299","DOI":"10.1038\/sj.onc.1205051","article-title":"The Polycomb-group gene eed regulates thymocyte differentiation and suppresses the development of carcinogen-induced T-cell lymphomas","volume":"21","author":"Richie","year":"2002","journal-title":"Oncogene"},{"key":"ref_115","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1016\/j.cell.2005.02.029","article-title":"Polycomb Group Protein Ezh2 Controls Actin Polymerization and Cell Signaling","volume":"121","author":"Su","year":"2005","journal-title":"Cell"},{"key":"ref_116","doi-asserted-by":"crossref","first-page":"11687","DOI":"10.1038\/ncomms11687","article-title":"CXXC finger protein 1 is critical for T-cell intrathymic development through regulating H3K4 trimethylation","volume":"7","author":"Cao","year":"2016","journal-title":"Nat. Commun."},{"key":"ref_117","doi-asserted-by":"crossref","first-page":"1371","DOI":"10.1084\/jem.20160894","article-title":"Enteropathy-associated T cell lymphoma subtypes are characterized by loss of function of SETD2","volume":"214","author":"Moffitt","year":"2017","journal-title":"J. Exp. Med."},{"key":"ref_118","doi-asserted-by":"crossref","first-page":"597","DOI":"10.4049\/jimmunol.1102513","article-title":"Coactivator-associated arginine methyltransferase 1 regulates fetal hematopoiesis and thymocyte development","volume":"190","author":"Li","year":"2013","journal-title":"J. Immunol."},{"key":"ref_119","doi-asserted-by":"crossref","first-page":"25339","DOI":"10.1074\/jbc.M402544200","article-title":"Loss of CARM1 Results in Hypomethylation of Thymocyte Cyclic AMP-regulated Phosphoprotein and Deregulated Early T Cell Development","volume":"279","author":"Kim","year":"2004","journal-title":"J. Biol. Chem."},{"key":"ref_120","doi-asserted-by":"crossref","first-page":"789","DOI":"10.1128\/MCB.26.3.789-809.2006","article-title":"Conditional Knockout Mice Reveal Distinct Functions for the Global Transcriptional Coactivators CBP and p300 in T-Cell Development","volume":"26","author":"Kasper","year":"2006","journal-title":"Mol. Cell. Biol."},{"key":"ref_121","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1093\/mutage\/ges080","article-title":"T-cell-specific deletion of Mof blocks their differentiation and results in genomic instability in mice","volume":"28","author":"Gupta","year":"2013","journal-title":"Mutagenesis"},{"key":"ref_122","doi-asserted-by":"crossref","first-page":"1335","DOI":"10.1182\/blood-2012-07-441949","article-title":"Histone deacetylase 1 and 2 are essential for normal T-cell development and genomic stability in mice","volume":"121","author":"Dovey","year":"2013","journal-title":"Blood"},{"key":"ref_123","doi-asserted-by":"crossref","first-page":"3854","DOI":"10.1128\/MCB.00706-15","article-title":"Histone Deacetylase 3 Is Required for Efficient T Cell Development","volume":"35","author":"Stengel","year":"2015","journal-title":"Mol. Cell. Biol."},{"key":"ref_124","doi-asserted-by":"crossref","first-page":"2479","DOI":"10.1038\/leu.2017.89","article-title":"Dnmt3a regulates T-cell development and suppresses T-ALL transformation","volume":"31","author":"Kramer","year":"2017","journal-title":"Leukemia"},{"key":"ref_125","doi-asserted-by":"crossref","first-page":"1183","DOI":"10.1242\/dev.02293","article-title":"Roles for Dnmt3b in mammalian development: A mouse model for the ICF syndrome","volume":"133","author":"Ueda","year":"2006","journal-title":"Development"},{"key":"ref_126","doi-asserted-by":"crossref","first-page":"763","DOI":"10.1016\/S1074-7613(01)00227-8","article-title":"A Critical Role for Dnmt1 and DNA Methylation in T Cell Development, Function, and Survival","volume":"15","author":"Lee","year":"2001","journal-title":"Immunity"},{"key":"ref_127","doi-asserted-by":"crossref","first-page":"3248","DOI":"10.4049\/jimmunol.1901471","article-title":"UHRF1 Controls Thymocyte Fate Decisions through the Epigenetic Regulation of EGR1 Expression","volume":"204","author":"Zhang","year":"2020","journal-title":"J. Immunol."},{"key":"ref_128","doi-asserted-by":"crossref","first-page":"112400","DOI":"10.1016\/j.yexcr.2020.112400","article-title":"Loss of MBD2 affects early T cell development by inhibiting the WNT signaling pathway","volume":"398","author":"Cheng","year":"2021","journal-title":"Exp. Cell Res."},{"key":"ref_129","doi-asserted-by":"crossref","first-page":"397","DOI":"10.1146\/annurev-immunol-092719-082622","article-title":"Chromatin-Modifying Enzymes in T Cell Development","volume":"38","author":"Shapiro","year":"2020","journal-title":"Annu. Rev. Immunol."},{"key":"ref_130","doi-asserted-by":"crossref","first-page":"330","DOI":"10.1016\/j.molmed.2015.03.001","article-title":"Epigenetics of T cells regulated by Polycomb\/Trithorax molecules","volume":"21","author":"Onodera","year":"2015","journal-title":"Trends Mol. Med."},{"key":"ref_131","doi-asserted-by":"crossref","first-page":"682","DOI":"10.1016\/S1471-4906(01)02082-8","article-title":"Polycomb-group genes as regulators of mammalian lymphopoiesis","volume":"22","author":"Raaphorst","year":"2001","journal-title":"Trends Immunol."},{"key":"ref_132","doi-asserted-by":"crossref","first-page":"845","DOI":"10.1016\/j.molcel.2005.12.002","article-title":"Role of Bmi-1 and Ring1A in H2A Ubiquitylation and Hox Gene Silencing","volume":"20","author":"Cao","year":"2005","journal-title":"Mol. Cell"},{"key":"ref_133","doi-asserted-by":"crossref","first-page":"873","DOI":"10.1038\/nature02985","article-title":"Role of histone H2A ubiquitination in Polycomb silencing","volume":"431","author":"Wang","year":"2004","journal-title":"Nature"},{"key":"ref_134","doi-asserted-by":"crossref","first-page":"179","DOI":"10.1016\/B978-0-12-385991-4.00005-2","article-title":"Pax5: A master regulator of B cell development and leukemogenesis","volume":"111","author":"Medvedovic","year":"2011","journal-title":"Adv. Immunol."},{"key":"ref_135","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1038\/nature08966","article-title":"Histone H2A deubiquitinase activity of the Polycomb repressive complex PR-DUB","volume":"465","author":"Scheuermann","year":"2010","journal-title":"Nature"},{"key":"ref_136","doi-asserted-by":"crossref","first-page":"609","DOI":"10.1016\/j.molcel.2007.07.024","article-title":"A Histone H2A Deubiquitinase Complex Coordinating Histone Acetylation and H1 Dissociation in Transcriptional Regulation","volume":"27","author":"Zhu","year":"2007","journal-title":"Mol. Cell"},{"key":"ref_137","doi-asserted-by":"crossref","first-page":"2856","DOI":"10.1172\/JCI123801","article-title":"USP16-mediated deubiquitination of calcineurin A controls peripheral T cell maintenance","volume":"129","author":"Zhang","year":"2019","journal-title":"J. Clin. Investig."},{"key":"ref_138","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1084\/jem.20122844","article-title":"USP21 negatively regulates antiviral response by acting as a RIG-I deubiquitinase","volume":"211","author":"Fan","year":"2014","journal-title":"J. Exp. Med."},{"key":"ref_139","doi-asserted-by":"crossref","unstructured":"Pannu, J., Belle, J.I., F\u00f6rster, M., Duerr, C.U., Shen, S., Kane, L., Harcourt, K., Fritz, J.H., Clare, S., and Nijnik, A. (2015). Ubiquitin Specific Protease 21 Is Dispensable for Normal Development, Hematopoiesis and Lymphocyte Differentiation. PLoS ONE, 10.","DOI":"10.1371\/journal.pone.0117304"},{"key":"ref_140","doi-asserted-by":"crossref","first-page":"343","DOI":"10.1038\/nature09784","article-title":"The Polycomb complex PRC2 and its mark in life","volume":"469","author":"Margueron","year":"2011","journal-title":"Nature"},{"key":"ref_141","doi-asserted-by":"crossref","first-page":"1101","DOI":"10.1084\/jem.20170084","article-title":"Signaling function of PRC2 is essential for TCR-driven T cell responses","volume":"215","author":"Dobenecker","year":"2018","journal-title":"J. Exp. Med."},{"key":"ref_142","doi-asserted-by":"crossref","first-page":"737","DOI":"10.1182\/blood-2013-12-544106","article-title":"The polycomb repressive complex 2 governs life and death of peripheral T cells","volume":"124","author":"Zhang","year":"2014","journal-title":"Blood"},{"key":"ref_143","doi-asserted-by":"crossref","first-page":"596","DOI":"10.1016\/j.immuni.2017.03.012","article-title":"Polycomb Repressive Complex 2-Mediated Chromatin Repression Guides Effector CD8+ T Cell Terminal Differentiation and Loss of Multipotency","volume":"46","author":"Gray","year":"2017","journal-title":"Immunity"},{"key":"ref_144","doi-asserted-by":"crossref","first-page":"3872","DOI":"10.1172\/JCI94645","article-title":"Ezh2 loss propagates hypermethylation at T cell differentiation\u2013regulating genes to promote leukemic transformation","volume":"128","author":"Wang","year":"2018","journal-title":"J. Clin. Investig."},{"key":"ref_145","doi-asserted-by":"crossref","first-page":"808","DOI":"10.1126\/science.1439790","article-title":"Ikaros, an early lymphoid-specific transcription factor and a putative mediator for T cell commitment","volume":"258","author":"Georgopoulos","year":"1992","journal-title":"Science"},{"key":"ref_146","doi-asserted-by":"crossref","first-page":"13007","DOI":"10.1074\/jbc.M111371200","article-title":"Unconventional Potentiation of Gene Expression by Ikaros","volume":"277","author":"Koipally","year":"2002","journal-title":"J. Biol. Chem."},{"key":"ref_147","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1146\/annurev.immunol.15.1.155","article-title":"The role of the Ikaros gene in lymphocyte development and homeostasis","volume":"15","author":"Georgopoulos","year":"1997","journal-title":"Annu. Rev. Immunol."},{"key":"ref_148","doi-asserted-by":"crossref","first-page":"3090","DOI":"10.1093\/emboj\/18.11.3090","article-title":"Repression by Ikaros and Aiolos is mediated through histone deacetylase complexes","volume":"18","author":"Koipally","year":"1999","journal-title":"EMBO J."},{"key":"ref_149","doi-asserted-by":"crossref","first-page":"8823","DOI":"10.1038\/ncomms9823","article-title":"Ikaros mediates gene silencing in T cells through Polycomb repressive complex 2","volume":"6","author":"Oravecz","year":"2015","journal-title":"Nat. Commun."},{"key":"ref_150","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1186\/2045-3701-3-39","article-title":"Histone H3 lysine 4 methyltransferases and demethylases in self-renewal and differentiation of stem cells","volume":"3","author":"Gu","year":"2013","journal-title":"Cell Biosci."},{"key":"ref_151","doi-asserted-by":"crossref","first-page":"479","DOI":"10.1038\/ng.3272","article-title":"FBXL10 protects Polycomb-bound genes from hypermethylation","volume":"47","author":"Boulard","year":"2015","journal-title":"Nat. Genet."},{"key":"ref_152","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1146\/annurev-biochem-051710-134100","article-title":"The COMPASS Family of Histone H3K4 Methylases: Mechanisms of Regulation in Development and Disease Pathogenesis","volume":"81","author":"Shilatifard","year":"2012","journal-title":"Annu. Rev. Biochem."},{"key":"ref_153","doi-asserted-by":"crossref","first-page":"115","DOI":"10.1038\/nrm3274","article-title":"Understanding the language of Lys36 methylation at histone H3","volume":"13","author":"Wagner","year":"2012","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"ref_154","doi-asserted-by":"crossref","first-page":"3353","DOI":"10.1038\/s41467-019-11282-x","article-title":"The histone methyltransferase Setd2 is indispensable for V(D)J recombination","volume":"10","author":"Ji","year":"2019","journal-title":"Nat. Commun."},{"key":"ref_155","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1016\/j.molcel.2005.04.003","article-title":"Arginine methylation an emerging regulator of protein function","volume":"18","author":"Bedford","year":"2005","journal-title":"Mol. Cell"},{"key":"ref_156","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1146\/annurev.biochem.70.1.81","article-title":"Histone Acetyltransferases","volume":"70","author":"Roth","year":"2001","journal-title":"Annu. Rev. Biochem."},{"key":"ref_157","doi-asserted-by":"crossref","first-page":"230","DOI":"10.1016\/S0962-8924(97)01048-9","article-title":"The p300\/CBP family: Integrating signals with transcription factors and chromatin","volume":"7","author":"Shiama","year":"1997","journal-title":"Trends Cell Biol."},{"key":"ref_158","doi-asserted-by":"crossref","first-page":"3894","DOI":"10.1128\/MCB.01598-08","article-title":"Histone Acetyltransferase CBP Is Vital To Demarcate Conventional and Innate CD8+ T-Cell Development","volume":"29","author":"Fukuyama","year":"2009","journal-title":"Mol. Cell. Biol."},{"key":"ref_159","doi-asserted-by":"crossref","first-page":"3916","DOI":"10.1158\/0008-5472.CAN-18-3622","article-title":"CBP\/p300 Drives the Differentiation of Regulatory T Cells through Transcriptional and Non-Transcriptional Mechanisms","volume":"79","author":"Castillo","year":"2019","journal-title":"Cancer Res."},{"key":"ref_160","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1128\/MCB.20.1.312-318.2000","article-title":"The Drosophila MSL Complex Acetylates Histone H4 at Lysine 16, a Chromatin Modification Linked to Dosage Compensation","volume":"20","author":"Smith","year":"2000","journal-title":"Mol. Cell. Biol."},{"key":"ref_161","doi-asserted-by":"crossref","first-page":"a018713","DOI":"10.1101\/cshperspect.a018713","article-title":"Erasers of Histone Acetylation: The Histone Deacetylase Enzymes","volume":"6","author":"Seto","year":"2014","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"ref_162","doi-asserted-by":"crossref","first-page":"e43821","DOI":"10.7554\/eLife.43821","article-title":"HDAC3 restrains CD8-lineage genes to maintain a bi-potential state in CD4+CD8+ thymocytes for CD4-lineage commitment","volume":"8","author":"Philips","year":"2019","journal-title":"eLife"},{"key":"ref_163","doi-asserted-by":"crossref","first-page":"1578","DOI":"10.4049\/jimmunol.1500435","article-title":"Histone Deacetylase 3 Is Required for T Cell Maturation","volume":"195","author":"Hsu","year":"2015","journal-title":"J. Immunol."},{"key":"ref_164","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1172\/JCI57292","article-title":"Loss of Dnmt3b function upregulates the tumor modifier Ment and accelerates mouse lymphomagenesis","volume":"122","author":"Hlady","year":"2012","journal-title":"J. Clin. Investig."},{"key":"ref_165","doi-asserted-by":"crossref","first-page":"14412","DOI":"10.1073\/pnas.96.25.14412","article-title":"The DNMT3B DNA methyltransferase gene is mutated in the ICF immunodeficiency syndrome","volume":"96","author":"Hansen","year":"1999","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_166","doi-asserted-by":"crossref","first-page":"1219","DOI":"10.1038\/ejhg.2013.40","article-title":"Heterogeneous clinical presentation in ICF syndrome: Correlation with underlying gene defects","volume":"21","author":"Weemaes","year":"2013","journal-title":"Eur. J. Hum. Genet."},{"key":"ref_167","doi-asserted-by":"crossref","first-page":"310","DOI":"10.1067\/mai.2001.116863","article-title":"T-cell apoptosis in ICF syndrome","volume":"108","author":"Pezzolo","year":"2001","journal-title":"J. Allergy Clin. Immunol."},{"key":"ref_168","doi-asserted-by":"crossref","first-page":"927","DOI":"10.1007\/s10875-018-0559-y","article-title":"Clinical and Immunological Characterization of ICF Syndrome in Japan","volume":"38","author":"Kamae","year":"2018","journal-title":"J. Clin. Immunol."},{"key":"ref_169","doi-asserted-by":"crossref","first-page":"1760","DOI":"10.1126\/science.1147939","article-title":"UHRF1 Plays a Role in Maintaining DNA Methylation in Mammalian Cells","volume":"317","author":"Bostick","year":"2007","journal-title":"Science"},{"key":"ref_170","doi-asserted-by":"crossref","first-page":"546","DOI":"10.1182\/blood-2008-06-163774","article-title":"Wnt3a deficiency irreversibly impairs hematopoietic stem cell self-renewal and leads to defects in progenitor cell differentiation","volume":"113","author":"Luis","year":"2009","journal-title":"Blood"},{"key":"ref_171","doi-asserted-by":"crossref","first-page":"451","DOI":"10.1016\/j.exphem.2016.03.004","article-title":"Caught in a Wnt storm: Complexities of Wnt signaling in hematopoiesis","volume":"44","author":"Staal","year":"2016","journal-title":"Exp. Hematol."},{"key":"ref_172","doi-asserted-by":"crossref","first-page":"e1981","DOI":"10.1038\/cddis.2015.326","article-title":"Discrete roles of canonical and non-canonical Wnt signaling in hematopoiesis and lymphopoiesis","volume":"6","author":"Famili","year":"2015","journal-title":"Cell Death Dis."},{"key":"ref_173","doi-asserted-by":"crossref","first-page":"414","DOI":"10.1038\/leu.2011.387","article-title":"Wnt signaling strength regulates normal hematopoiesis and its deregulation is involved in leukemia development","volume":"26","author":"Luis","year":"2012","journal-title":"Leukemia"},{"key":"ref_174","doi-asserted-by":"crossref","first-page":"813","DOI":"10.1016\/j.immuni.2012.08.009","article-title":"The TCF-1 and LEF-1 Transcription Factors Have Cooperative and Opposing Roles in T Cell Development and Malignancy","volume":"37","author":"Yu","year":"2012","journal-title":"Immunity"},{"key":"ref_175","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1002\/wsbm.162","article-title":"Regulatory gene network circuits underlying T cell development from multipotent progenitors","volume":"4","author":"Kueh","year":"2012","journal-title":"Wiley Interdiscip. Rev. Syst. Biol. Med."},{"key":"ref_176","doi-asserted-by":"crossref","first-page":"2227","DOI":"10.1101\/gad.176826.111","article-title":"Pioneer transcription factors: Establishing competence for gene expression","volume":"25","author":"Zaret","year":"2011","journal-title":"Genes Dev."},{"key":"ref_177","doi-asserted-by":"crossref","first-page":"367","DOI":"10.1146\/annurev-genet-030220-015007","article-title":"Pioneer Transcription Factors Initiating Gene Network Changes","volume":"54","author":"Zaret","year":"2020","journal-title":"Annu. Rev. Genet."},{"key":"ref_178","doi-asserted-by":"crossref","first-page":"844","DOI":"10.1016\/j.molcel.2014.04.006","article-title":"Coregulation of Transcription Factor Binding and Nucleosome Occupancy through DNA Features of Mammalian Enhancers","volume":"54","author":"Barozzi","year":"2014","journal-title":"Mol. Cell"},{"key":"ref_179","doi-asserted-by":"crossref","first-page":"402","DOI":"10.1038\/s41467-019-13960-2","article-title":"Mechanisms governing the pioneering and redistribution capabilities of the non-classical pioneer PU.1","volume":"11","author":"Minderjahn","year":"2020","journal-title":"Nat. Commun."},{"key":"ref_180","doi-asserted-by":"crossref","first-page":"1508","DOI":"10.1101\/gr.231423.117","article-title":"Pioneering, chromatin remodeling, and epigenetic constraint in early T-cell gene regulation by SPI1 (PU.1)","volume":"28","author":"Hosokawa","year":"2018","journal-title":"Genome Res."},{"key":"ref_181","doi-asserted-by":"crossref","unstructured":"Hosokawa, H., Masuhara, K., and Koizumi, M. (2021). Transcription factors regulate early T cell development via redeployment of other factors: Functional dynamics of constitutively required factors in cell fate decisions. Bioessays, e2000345.","DOI":"10.1002\/bies.202000345"},{"key":"ref_182","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1016\/j.cell.2017.09.001","article-title":"Non-coding Transcription Instructs Chromatin Folding and Compartmentalization to Dictate Enhancer-Promoter Communication and T Cell Fate","volume":"171","author":"Isoda","year":"2017","journal-title":"Cell"},{"key":"ref_183","doi-asserted-by":"crossref","first-page":"108622","DOI":"10.1016\/j.celrep.2020.108622","article-title":"Multi-scale Dynamical Modeling of T Cell Development from an Early Thymic Progenitor State to Lineage Commitment","volume":"34","author":"Olariu","year":"2021","journal-title":"Cell Rep."},{"key":"ref_184","doi-asserted-by":"crossref","first-page":"227","DOI":"10.1016\/j.immuni.2018.01.013","article-title":"Transformation of Accessible Chromatin and 3D Nucleome Underlies Lineage Commitment of Early T Cells","volume":"48","author":"Hu","year":"2018","journal-title":"Immunity"},{"key":"ref_185","doi-asserted-by":"crossref","first-page":"897","DOI":"10.1016\/j.cell.2018.12.036","article-title":"The cis-Regulatory Atlas of the Mouse Immune System","volume":"176","author":"Yoshida","year":"2019","journal-title":"Cell"},{"key":"ref_186","doi-asserted-by":"crossref","first-page":"695","DOI":"10.1038\/ni.3456","article-title":"Tcf1 and Lef1 transcription factors establish CD8+ T cell identity through intrinsic HDAC activity","volume":"17","author":"Xing","year":"2016","journal-title":"Nat. Immunol."},{"key":"ref_187","doi-asserted-by":"crossref","first-page":"5480","DOI":"10.4049\/jimmunol.1303417","article-title":"T Cell Factor 1 Represses CD8+ Effector T Cell Formation and Function","volume":"193","author":"Tiemessen","year":"2014","journal-title":"J. Immunol."},{"key":"ref_188","doi-asserted-by":"crossref","first-page":"11258","DOI":"10.1073\/pnas.0809485106","article-title":"Opposing effects of SWI\/SNF and Mi-2\/NuRD chromatin remodeling complexes on epigenetic reprogramming by EBF and Pax5","volume":"106","author":"Gao","year":"2009","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_189","doi-asserted-by":"crossref","first-page":"2388","DOI":"10.1038\/emboj.2011.140","article-title":"The transcription factor Pax5 regulates its target genes by recruiting chromatin-modifying proteins in committed B cells","volume":"30","author":"McManus","year":"2011","journal-title":"EMBO J."},{"key":"ref_190","doi-asserted-by":"crossref","first-page":"279","DOI":"10.1038\/s41590-018-0046-x","article-title":"Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes","volume":"19","author":"Zhang","year":"2018","journal-title":"Nat. Immunol."},{"key":"ref_191","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1139\/o11-042","article-title":"ATP-dependent chromatin remodeling in T cells","volume":"90","author":"Wurster","year":"2012","journal-title":"Biochem. Cell Biol."},{"key":"ref_192","doi-asserted-by":"crossref","first-page":"3085","DOI":"10.1084\/jem.20161827","article-title":"Mbd3\/NuRD controls lymphoid cell fate and inhibits tumorigenesis by repressing a B cell transcriptional program","volume":"214","author":"Loughran","year":"2017","journal-title":"J. Exp. Med."},{"key":"ref_193","doi-asserted-by":"crossref","first-page":"1937","DOI":"10.1084\/jem.20030714","article-title":"The Role of Brg1, a Catalytic Subunit of Mammalian Chromatin-remodeling Complexes, in T Cell Development","volume":"198","author":"Gebuhr","year":"2003","journal-title":"J. Exp. Med."},{"key":"ref_194","first-page":"165","article-title":"The epigenetic landscape of lineage choice: Lessons from the heritability of CD4 and CD8 expression","volume":"356","author":"Gialitakis","year":"2012","journal-title":"Curr. Top. Microbiol. Immunol."}],"container-title":["Cells"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2073-4409\/10\/5\/1074\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T05:56:15Z","timestamp":1760162175000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2073-4409\/10\/5\/1074"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,4,30]]},"references-count":194,"journal-issue":{"issue":"5","published-online":{"date-parts":[[2021,5]]}},"alternative-id":["cells10051074"],"URL":"https:\/\/doi.org\/10.3390\/cells10051074","relation":{},"ISSN":["2073-4409"],"issn-type":[{"value":"2073-4409","type":"electronic"}],"subject":[],"published":{"date-parts":[[2021,4,30]]}}}