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Table 2 Genes assigned to FLS 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 Candidate genes (proximal) Candidate genes (interacting) FLS basal proximal genes FLS basal distal genes FLS stim. proximal genes FLS stim. distal genes
3 chr1 2 FLS rs28411352, rs28489009, rs2306627 POU3F1; MANEAL RSPO1; RHBDL2 INPP5B; YRDC; C1orf122; MTF1; SF3A3; FHL3 MTF1; GNL2; RRAGC; MYCBP; YRDC; C1orf122; SF3A3 YRDC; C1orf122; MTF1; SF3A3 MTF1; CDCA8; RRAGC; MYCBP; YRDC; C1orf122
4 chr1 1 FLS rs4839319, rs4839318, rs77227025 PTPN22 RLIMP2; SYT6; BCL2L15 MAGI3; RSBN1; AP4B1; PHTF1 AP4B1-AS1; HIPK1; OLFML3 HIPK1; AP4B1- AS1; OLFML3 MAGI3; AP4B1- AS1; HIPK1; OLFML3 HIPK1; AP4B1- AS1; OLFML3
10 chr2 1 ALL rs10175798, rs10173253, rs906868, rs7579944, rs1355208    LBH LCLAT1 LBH LCLAT1
11 chr2 2 ALL rs34695944, rs56095903    REL   REL REL; PUS10
12 chr2 3 FLS rs1858037, rs1858036, rs11673987, rs11126035, rs906577    SPRED2 ACTR2; SPRED2 SPRED2 ACTR2; SPRED2; AFTPH; PPP3R1
20 chr3 1 ALL rs73081554, rs185407974,
rs180977001, rs35677470, rs114584537
DNASE1L3; HTD2 ALCOX2 FLNB; FLNB-AS1;
ABHD6; RPP14; PXK
PXK; SLMAP; FLNB; FLNB-AS1; PDHB FLNB; FLNB-AS1; PXK PXK; FLNB; FLNB-AS1; PDHB; SLMAP
23 chr4 3 FLS rs34046593, rs36020664,
rs11933540, rs6448434, rs6448432
  SMIM20;
TBC1D19; STIM2
  RBPJ   RBPJ
25 chr5 3 FLS rs2561477   PDZPHIP C5orf30    
27 chr6 3 FLS rs2234067, rs1885205, rs916287, rs4713969, rs879036     STK38; SRSF3   STK38; SRSF3; MAPK14
28 chr6 3 ALL   TCTE1 SPATS1; VEGFA AARS2; NFKBIE HSP90AB1; SLC35B2 NFKBIE HSP90AB1; SLC35B2; NFKBIE
33 chr7 2 ALL rs186735625, rs57585717, rs2158624   HOXA11; HOTAIRM1 JAZF1 JAZF1; HOXA10; HOXA11-AS;
CREB5
JAZF1 JAZF1; HOXA11- AS; CREB5
34 chr7 3 FLS, B CELL rs4272, rs8179, rs42034   SAND9; HEPACAM2; VPS50 CDK6 CDK6; SAMD9; SAMD9L CDK6 CDK6; SAMD9; SAMD9L
36 chr8 2 FLS, B CELL rs2736337 BLK TDH; GATA4; DEFB     
38 chr8 2 FLS rs678347, rs507201, rs657425 GRHL2    RRM2B   
41 chr9 3 ALL rs10985070    C5; PHF19; TRAF1 PHF19; MEGF9; CNTRL; FBXW2; PSMD5; GSN; GSN-AS1 PHF19; TRAF1 PHF19; TRAF1; CNTRL; FBXW2; GSN; GSN-AS1; PSMD5; STOM
46 chr10 1 ALL rs12764378, rs71508903   RTKN2 ARID5B ARID5B ARID5B ARID5B
48 chr11 3 ALL rs968567, rs7943728, rs61896141, rs61897793, rs61897795 CD5 PTGDR2 FADS2; SLC15A3; TKFC; INCENP; CCDC86; PRPF19; TMEM109; TMEM132A; VPS37C; DDB1; CYB561A3; TMEM138; CPSF7; MYRF; FEN1; FADS1; FADS3; BEST1; FTH1 FADS2; FADS1; MYRF; FEN1; INCENP; FADS3; BEST1; FTH1; RAB3IL1; CCDC86; PRPF19; TMEM109 FADS2; SLC15A3; TKFC; INCENP; CCDC86; PRPF19; TMEM109; TMEM132A; VPS37C; DDB1; CYB561A3; TMEM138; CPSF7; MYRF; FEN1; FADS1; FADS3; BEST1; FTH1 FADS2; FADS1; MYRF; FEN1; VPS37C; INCENP; FADS3; BEST1; FTH1; CCDC86; PRPF19; TMEM109; TMEM132A; SLC15A3
56 chr14 2 ALL rs1950897, rs911263, rs1885013, rs2104047, rs3784099    RAD51B ZFP36L1   ZFP36L1
57 chr14 2 ALL rs7146217, rs36045050, rs11158764    RAD51B;ZFYVE26
; ZFP36L1
ZFP36L1 ZFYVE26; ZFP36L1 ZFP36L1
67 chr20 2 ALL rs4239702, rs4810485, rs1883832    CD40 SLC35C2; ELMO2   ELMO2; SLC35C2; NCOA5
68 chr21 3 ALL rs73194058, rs11702844, rs11700997    SON; IFNGR2; ITSN1; TMEM50B; GART; DONSON; CRYZL1 IFNGR2; GART; SON; ITSN1; IFNAR1; PAXBP1- AS1; IL10RB-DT; DONSON; NDUFV3; ATP5PO SON; IFNGR2; ITSN1; GART; DONSON IFNGR2; GART; SON; ITSN1; IFNAR2; IFNAR1; PAXBP1; IL10RB- DT; IL10RB; DONSON; PTER
69 chr21 3 FLS rs7278771, rs7283600, rs147868091    RCAN1 RCAN1 RCAN1 RCAN1
70 chr21 1 FLS rs8133843, rs8129030, rs9979383   SET4; PPP1R2P2   RUNX1   RUNX1; CLIC6