STANDARD_NAME	ZHENG_FOXP3_TARGETS_IN_THYMUS_UP
SYSTEMATIC_NAME	M1746
COLLECTION	C2:CGP
MSIGDB_URL	https://www.gsea-msigdb.org/gsea/msigdb/human/geneset/ZHENG_FOXP3_TARGETS_IN_THYMUS_UP
NAMESPACE	MOUSE_GENE_SYMBOL
DESCRIPTION_BRIEF	Genes with promoters bound by FOXP3 [GeneID=50943] and which are up-regulated only in developing (located in the thymus) regulatory CD4+ [GeneID=920] T lymphocytes.
DESCRIPTION_FULL	Transcription factor Foxp3 (forkhead box P3), restricted in its expression to a specialized regulatory CD4+ T-cell subset (T(R)) with a dedicated suppressor function, controls T(R) lineage development. In humans and mice, Foxp3 deficiency results in a paucity of T(R) cells and a fatal breach in immunological tolerance, causing highly aggressive multi-organ autoimmune pathology. Here, through genome-wide analysis combining chromatin immunoprecipitation with mouse genome tiling array profiling, we identify Foxp3 binding regions for approximately 700 genes and for an intergenically encoded microRNA. We find that a large number of Foxp3-bound genes are up- or downregulated in Foxp3+ T cells, suggesting that Foxp3 acts as both a transcriptional activator and repressor. Foxp3-mediated regulation unique to the thymus affects, among others, genes encoding nuclear factors that control gene expression and chromatin remodelling. In contrast, Foxp3 target genes shared by the thymic and peripheral T(R) cells encode primarily plasma membrane proteins, as well as cell signalling proteins. Together, our studies suggest that distinct transcriptional sub-programmes implemented by Foxp3 establish T(R) lineage during differentiation and its proliferative and functional competence in the periphery.
PMID	17237761
GEOID	
AUTHORS	Zheng Y,Josefowicz SZ,Kas A,Chu TT,Gavin MA,Rudensky AY
CONTRIBUTOR	Jessica Robertson
CONTRIBUTOR_ORG	MSigDB Team
EXACT_SOURCE	Table 3S: thymus only
FILTERED_BY_SIMILARITY	
EXTERNAL_NAMES_FOR_SIMILAR_TERMS	
EXTERNAL_DETAILS_URL	
SOURCE_MEMBERS	1110014D18Rik,130004C03,1700052N19Rik,1810054D07Rik,2810043O03Rik,2810482G21Rik,2810485I05Rik,2900001O04Rik,2900024C23Rik,4832441B07Rik,4833412E19Rik,4930505D03Rik,4933421E11Rik,5730419I09Rik,5830443J22Rik,5830460E08Rik,5930405F01Rik,9130004J05Rik,A130090K04Rik,A430001F24Rik,A430107P09Rik,A630054L15Rik,AB041803,Abt1,Abtb2,ACTBP7,Add3,AI447904,AI504432,Akap13,Ankrd12,Ap4s1,Arhgap15,Arhgap5,Arhgef10,Arhgef3,Arid5b,Arl4a,Asxl2,Atg16l1,Atp2b1,Atp6v1a,AW146242,B230315F11Rik,B3gnt2,BC033915,BC087945,BDMR,Btbd10,C030038J10Rik,C230066G23Rik,C78339,C80258,Cast,Cblb,Ccdc32,Cd28,Cd69,Cd84,Cdc2l6,Cdk2,Chd9,Cited2,Cnot2,Cnot6l,Cpe,Cpox,Cugbp2,Cxcr4,D10Ucla1,D13Ertd787e,D15Ertd621e,D16Ertd472e,D18Ertd653e,D230012E17Rik,D6Wsu176e,D930036F22Rik,Dbf4,Dctn6,Dock10,Dusp22,E430029J22Rik,Ebi2,Elf1,Elk3,Errfi1,Esd,Etnk1,Ets1,Evi5,Ext1,F2rl1,Fem1c,Fli1,Galnt4,Gbp1,Gdi2,Glcci1,Gm440,Gm71,Gphn,Gpr18,Hbp1,Hbs1l,Herpud2,Hif1a,Hivep2,Ibtk,Ids,Ifnar2,Il7r,Inpp4b,Irf4,Itga6,Jarid2,Jmjd1c,Kif3b,Klf3,Klf6,L3mbtl3,Lats2,Lnx2,LOC3827,LOC548102,Lrch1,Lrig1,Lta4h,Malt1,Man1a,Man1a2,Map3k1,Map3k5,Mbnl1,Mdfic,Mpa2l,Mtfr1,Muted,Myo9a,Myst4,Nat12,Nck2,Ncoa3,Nek7,Nfkbiz,Nr3c1,Nt5e,Nudcd3,Nup153,P2ry10,Pak1ip1,Parl,Pctk2,Pde4b,Peli1,Phgdhl1,Phtf2,Pik3r1,Pip5k2a,Ppp2r5c,Ppp3cc,Psma1,Ptger2,Pvt1,Rab6ip1,Rab8b,Rabgap1l,Rapgef6,Rfx3,Rgs1,Rnf125,Rod1,Rpl5,Samhd1,Sdcbp,Sec15l2,Sec63,Sesn1,Sfrs10,Sla,Slamf1,Slamf6,Slc35b3,Slc37a3,Smc5l1,Socs2,Sri,Stat4,Stat5b,Strn3,Tasp1,Tbc1d15,Tbc1d5,Tcf12,Tcrb-J,Tcrb-V13,Tlr1,Tmem23,Tmem64,Tnfaip3,Tnfsf11,Top1,Top2b,Tox,Tpp2,Trat1,Trim34,Trio,Tubb2c,Vps54,Wbp4,Wdr37,Wnk1,Za20d3,Zbtb20,Zbtb25,Zc3hav1,Zfp217,Zfp306,Zfp36l2
GENE_SYMBOLS	NSMCE2,,ARMT1,TTC39B,,ZYG11B,FAM76B,TTC33,DIPK1A,,,TBC1D30,LRIF1,C2CD5,,AKAP13,,,IPCEF1,TESPA1,,DENND6A,LINC-PINT,,,,VOPP1,ABT1,ABTB2,ADD3,AKAP13,ANKRD12,AP4S1,ARHGAP15,ARHGAP5,ARHGEF10,ARHGEF3,ARID5B,ARL4A,ASXL2,ATG16L1,ATP2B1,ATP6V1A,SLC25A40,B3GNT2,SIK3,OTULIN,,BTBD10,GPRIN3,,FAM8A1,,CAST,CBLB,CCDC32,CD28,CD69,CD84,CDK19,CDK2,CHD9,CITED2,CNOT2,CNOT6L,CPE,CPOX,CELF2,CXCR4,REEP3,,FAM91A1,C21orf91,LDLRAD4,PGAP1,FAM3C,HEATR5A,DBF4,DCTN6,DOCK10,DUSP22,,GPR183,ELF1,ELK3,ERRFI1,ESD,ETNK1,ETS1,EVI5,EXT1,F2RL1,FEM1C,FLI1,GALNT4,GBP2,GDI2,GLCCI1,,VCPKMT,GPHN,GPR18,HBP1,HBS1L,HERPUD2,HIF1A,HIVEP2,IBTK,IDS,IFNAR2,IL7R,INPP4B,IRF4,ITGA6,JARID2,JMJD1C,KIF3B,KLF3,KLF6,L3MBTL3,,,LATS2,LNX2,LRCH1,LRIG1,LTA4H,MALT1,MAN1A1,MAN1A2,MAP3K1,MAP3K5,MBNL1,MDFIC,GBP6,MTFR1,BLOC1S5,MYO9A,KAT6B,NAA30,NCK2,NCOA3,NEK7,NFKBIZ,NR3C1,NT5E,NUDCD3,NUP153,P2RY10,PAK1IP1,PARL,CDK17,PDE4B,PELI1,UBAC2,PHTF2,PIK3R1,PIP4K2A,PPP2R5C,PPP3CC,PSMA1,PTGER2,PVT1,DENND5A,RAB8B,RABGAP1L,RAPGEF6,RFX3,RGS1,RNF125,PTBP3,RPL5,SAMHD1,SDCBP,EXOC6B,SEC63,SESN1,SRSF2,SLA,SLAMF1,SLAMF6,SLC35B3,SLC37A3,SMC5,SOCS2,SRI,STAT4,STAT5B,STRN3,TASP1,TBC1D15,TBC1D5,TCF12,,TRBV11-3,TLR1,SGMS1,TMEM64,TNFAIP3,TNFSF11,TOP1,TOP2B,TOX,TPP2,TRAT1,TRIM34,TRIO,TUBB4B,VPS54,WBP4,WDR37,WNK1,ZFAND6,ZBTB20,ZBTB25,ZC3HAV1,ZNF217,ZKSCAN3,ZFP36L2
FOUNDER_NAMES