Genome-wide analysis of Foxp3 target genes in developing and mature regulatory T cells

By Ye Zheng, Steven Z. Josefowicz, A. Kas, Tin-Tin Chu, M. Gavin, Alexander Y. Rudensky. Nature, 2007

889 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/bde9f6db9cd01f1588d74e4bf39c55e4f0462dda

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In Immunology

Citations in the corpus

Development and maintenance of regulatory T cells. (2013, background): “Supporting this possible division of labor, Treg-cell-specific DNA hypomethylated regions in the genome are mostly different from Foxp3-binding sites (Ohkura et al., 2012; Samstein et al., 2012; Zheng et al., 2007).”
Regulatory T cells and immune tolerance. (2008, background): “Recent searches for Foxp3 target genes have shown that Foxp3 directly or indirectly controls hundreds (~700) of genes and binds directly to ~10% of them (Marson et al., 2007; Zheng et al., 2007).”
Interleukin-2 Receptor Signaling: At the Interface between Tolerance and Immunity (2010, positive): “This latter process is likely the result of direct action of Stat5 and Foxp3, the latter in complex with the transcription factor Runx1, on Il2ra transcription (Ono et al., 2007; Zheng et al., 2007b).”
The transcription factors Blimp-1 and IRF4 jointly control the differentiation and function of effector regulatory T cells (2011, background): “The transcription factor Blimp-1 is encoded by Prdm1 (called ' Blimp1 ' here), which is a target of Foxp3 in T reg cell”
Myelin-specific regulatory T cells accumulate in the CNS but fail to control autoimmune inflammation (2007, background): “The transcription factor Foxp3 has been identified as crucial for the commitment of thymocytes to the T-reg lineag”
Expression of Helios, an Ikaros Transcription Factor Family Member, Differentiates Thymic-Derived from Peripherally Induced Foxp3+ T Regulatory Cells (2010, positive): “Chromatin precipitation assays using an Ab to Foxp3 suggested that Foxp3 binds to the Helios promoter and could regulate its expression (38).”
Foxp3 in control of the regulatory T cell lineage (2007, background): “Recent examination of Foxp3 binding sites in ex vivo isolated T reg cells using chromatin immunoprecipitation (ChIP) interrogated by the mouse genome tiling array in parallel with gene expression profiling showed that ∼300 genes, or less than 10% of genes whose expression is modulated in a Foxp3-”
Maintenance of the Foxp3-dependent developmental program in mature regulatory T cells requires continued expression of Foxp3 (2007, background): “Genome-wide analysis of Foxp3-binding regions by chromatin immunoprecipitation has shown that most Foxp3 direct target genes are differentially expressed in the thymus, whereas a relatively small group of those genes are expressed in both thymic and peripheral Foxp3 + subset”
Regulatory T cells in tumor immunity (2010, background): “Foxp3 inhibits TCR-activation-dependent production of effector cytokines including IL-2 and IFN-c.(21,22) As possible mechanisms of”
Function of miR-146a in controlling Treg cell-mediated regulation of Th1 responses (2010, positive): “This sizable cluster of ‘‘Foxp3-amplified’’ genes includes those serving as hallmarks of Treg cells (CTLA4, CD25, and GITR) and playing important functional roles in their homeostasis and function (Gavin et al., 2007; Lin et al., 2007; Zheng et al., 2007; Marson et al., 2007).”
Regulatory T Cells and Foxp3 (2011, background): “This idea is not inconsistent with the results of the genomewide analyses of Foxp3 target genes in Treg cells or in Foxp3 transfected hybridoma T-cell line using chromatin immunoprecipitation (ChIP) combined with whole genome tiling or custom promoter-enhancer arrays, respectively (40, 41).”
Interleukin-10 signaling in regulatory T cells is required for suppression of Th17 cell-mediated inflammation (2011, positive): “Chromatin Immunoprecipitation ChIP was performed as described previously (Zheng et al., 2007).”
Regulatory T Cells: Mechanisms of Differentiation and Function (2012, methodology): “Foxp3 can control the differentiation and function of Treg cells directly and indirectly by changing expression of various regulators of genes expression including miRNAs (145), small untranslated RNA species that have been well recognized for their roles in organ development, cellular differentiati”
A census of human transcription factors: function, expression and evolution (2009, background): “37 ) there have been 2,382 publications, including several ChIP–chip (chromatin immunoprecipitation coupled with microarray) studies exploring its genome-wide binding site”