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Table 3 Genes assigned to T and/or B cells based on posterior probability of SNPs in enhancers

From: Functional genomics atlas of synovial fibroblasts defining rheumatoid arthritis heritability

Locus Chr SNP cate gory FLS, T, B, ALL, NONE (based on posteriors of SNPs in enhancers) Top posterior rs numbers Jurkat T cells proximal genes Jurkat T cells distal genes GM12878 B cells proximal genes GM12878 B cells distal genes
5 chr1 1 B CELL rs6679677, rs2476601 RSBN1; PHTF1; PTPN22 RSBN1; PHTF1; PTPN22; AP4B1; HIPK1-AS1; HIPK1; OLFML3 RSBN1; PHTF1; PTPN22 RSBN1; PTPN22; PHTF1; AP4B1-AS1; BCL2L15; AP4B1; HIPK1-AS1; HIPK1; OLFML3; LRIG2
6 chr1 2 B CELL rs1217404, rs2476604, rs1217420 RSBN1; PHTF1; PTPN22; AP4B1-AS1 RSBN1; PHTF1; PTPN22; AP4B1; HIPK1-AS1; HIPK1; OLFML3 RSBN1; PHTF1; PTPN22; AP4B1-AS1 PTPN22; RSBN1; PHTF1; AP4B1-AS1; BCL2L15; AP4B1; HIPK1-AS1; HIPK1; OLFML3; LRIG2; FRMD8; ARL13B; STX19
8 1 3 B CELL rs4657041, rs1801274, rs6671847 FCGR2A FCER1G; NDUFS2; SDHC; MPZ; CFAP126; FCGR2A; FCGR2B; FCRLA; FCRLB; RN7SL466P; DUSP12; ATF6; PCP4L1; ADAMTS4 FCGR2A SDHC; MPZ; FCGR2A; FCGR2B; FCRLA; FCRLB; RN7SL466P; DUSP12; ATF6; CFAP126; RNU6- 481P; ADAMTS4; NDUFS2
10 chr2 1 ALL rs10175798, rs10173253, rs906868, rs7579944 LBH LBH LBH LBH; LCLAT1
11 chr2 2 ALL rs34695944, rs56095903, rs67574266, rs13031237, rs13031721 LINC01185; REL; RNU4- 51P LINC01185; REL; RNU4- 51P; PUS10; PAPOLG; RN7SL632P; RNA5SP95; B3GNT2; RNU6-612P LINC01185; REL; RNU4- 51P LINC01185; REL; RNU4- 51P; PUS10; PAPOLG; RN7SL632P; RNA5SP95; B3GNT2; RNU6-612P
14 chr2 3 T CELL rs13426947, rs3024859, rs7568275, rs11889341 STAT4 STAT4; RNU6-959P; MYO1B STAT4 STAT4; RNU6-959P
16 chr2 3 T CELL rs1980421, rs1980422, rs7588874, rs7422494 CD28; RNU6-474P;
CTLA4
CD28; RNU6-474P; CTLA4; RAPH1; ABI2 CD28; RNU6-474P; CTLA4 CD28; CTLA4; RNU6-474P; RAPH1; PRKG1
17 chr2 1 T CELL rs231724, rs231723, rs231775 CTLA4 CTLA4; CD28; RNU6- 474P; RAPH1 CTLA4 CD28; CTLA4; RNU6- 474P; RAPH1
19   2 T CELL, B CELL rs9310852, rs4680838, rs9880772, rs1353286 EOMES LINC02084; EOMES; LINC01967; CMC1; AZI2; ZCWPW2; NEK10;
LINC01980
EOMES LINC02084; EOMES; CMC1; AZI2; ZCWPW2
20 chr3 1 ALL rs73081554, rs185407974, rs180977001, rs35677470, rs114584537 FLNB; DNASE1L3; FLNB- AS1; ABHD6; RPP14; HTD2; PXK DNASE1L3; ABHD6; RPP14; HTD2; PXK; PDHB; KCTD6; ACOX2; FAM107A; FAM3D-AS1; FAM3D; FLNB FLNB; DNASE1L3; FLNB- AS1; ABHD6; RPP14; HTD2; PXK DNASE1L3; ABHD6; RPP14; HTD2; PXK; FLNB; FLNB-AS1; PDHB; KCTD6; ACOX2; FAM107A; FAM3D-AS1; FAM3D
24 chr5 1 T CELL rs7731626 ANKRD55 ANKRD55; RNA5SP184; IL6ST ANKRD55 ANKRD55; RNU6-299P; RNA5SP184; IL31RA; IL6ST
28 chr6 3 ALL   TMEM151B; AARS2; NFKBIE; TCTE1 TMEM151B; AARS2; TCTE1; HSP90AB1; SLC35B2; MIR4647; NFKBIE; SPATS1; CAPN11; TMEM63B; RN7SL811P TMEM151B; AARS2; NFKBIE; TCTE1 TMEM151B; AARS2; TCTE1; NFKBIE; HSP90AB1; SLC35B2; MIR4647; MRPL14; TMEM63B; SPATS1; TRIM38; CAPN11; MTX2
31 chr6 2 B CELL rs2451258, rs2485363, rs654690 , rs1994564, rs212389   RSPH3; TAGAP; SYTL3;
C6orf99
  RSPH3; TAGAP; SYTL3; C11orf44
32 chr6 1 T CELL, B CELL rs1571878, rs3093017, rs10946216 CCR6 CCR6; RPS6KA2 CCR6 CCR6; SFT2D1; RPS6KA2; RNASET2; MIR3939; FGFR1OP; GPR31; PPIL4
33 chr7 2 ALL rs186735625, rs57585717, rs2158624 JAZF1; JAZF1-AS1; RNU6- 979P JAZF1; RNU6-979P; JAZF1-AS1; HOTTIP; HOXA1; HOTAIRM1; HOXA3; HOXA-AS2; HOXA4; HOXA5; HOXA6; HOXA-AS3; HOXA7; HOXA9; HOXA10-AS; MIR196B; HOXA10; HOXA11; HOXA11-AS; EVX1-AS; EVX1 JAZF1; JAZF1-AS1; RNU6- 979P JAZF1; RNU6-979P; JAZF1-AS1; HOTTIP; HOXA11; HOXA11-AS; HOXA1; HOTAIRM1; HOXA3; HOXA-AS2; HOXA4; HOXA5; HOXA- AS3; HOXA7; HOXA9; HOXA10-AS; MIR196B; HOXA10; EVX1-AS; EVX1; HOXA6; PARP9
34 chr7 3 FLS, B CELL rs4272, rs8179, rs42034 CDK6 CDK6; PEX1; RBM48; FAM133B; CDK6-AS1; SAMD9; VPS50; HEPACAM2 CDK6 CDK6; FAM133B; SAMD9; CDK6-AS1