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