Skip to main content

Table 2 Top 20 SNP (or SNP clusters) associated with helminth diversity.

From: The landscape of human genes involved in the immune response to parasitic worms

SNP Candidate
Distance (bp)a Annotation τ Description Reference
rs6989916 CSMD1 14833 intergenic 0.702 CSMD1 acts as a regulator of the complement system [77]
NAP1L1, PHLDA1 35490;
intron; intergenic 0.700;
PHLDA1 participates in regulating T-cell receptor/CD3-dependent induction of CD95/Fas [78]
PDHA2 45648;
intergenic 0.696;
Pyruvate dehydrogenase (lipoamide) alpha 2  
CHL1 49940;
intergenic 0.690;
Cell adhesion molecule with homology to L1CAM  
rs10014145 SLC39A8 genic intron 0.685 SLC39A8 encodes a zinc transporter which is up-regulated by different cytokines in lung epithelia and monocytes [79, 80]
rs4682429 CD200R1L 12582 intergenic 0.684 Engagement of CD200RL1 (aka CD200R2) results in the development of dendritic cells that preferentially induce Treg Cells [33]
rs7130880 PRMT3 14431 intergenic 0.682 PRMT3 encodes a protein arginine methyltransferase expressed in T and B cells; arginine methylation is important for T cell activation and is induced by CD28 engagements [81]
rs504508 KATNAL1 111767 intergenic 0.682 Katanin p60 subunit A-like 1  
rs12371626 GRIP1 genic intron 0.680 GRIP1 acts with Beta-catenin to enhance the activity of LEF1 (lymphoid enhancer-binding factor 1) [82]
rs1441443 PDZRN3 252500 intergenic 0.678 PDZ domain containing ring finger 3  
rs236233 IRAK1BP1 452153 intergenic 0.677 IRAKBP1 is required for TNF-alpha activation of NF-kB dependent-gene expression [83]
rs3807250 DPP6 genic intron 0.677 Dipeptidyl-peptidase 6; a susceptibility gene for amyotrophic lateral sclerosis [84]
rs11702528 BTG3 52819 intergenic 0.676 BTG3 is a transcriptional target of p53 that inhibits E2F1  
rs985122 AJ606331 508 intergenic 0.674 Putative non-coding RNA  
rs4692241 STIM2 529000 intergenic, eQTL 0.673 STIM2 promotes store-operated Ca2+ entry into T cells; STIM1 and STIM2 proteins are required for the development and function of regulatory T cells [34]
rs10270302 GIMAP7 genic intron 0.672 GIMAP7 encodes a GTPase of the immunity-associated protein family; it is expressed at very high levels in CD4+ and CD8+ T cells, and in NK cells SymAtlas
rs7258075 RYR1 genic intron 0.672 Activation of RYR1 causes a rapid increase in the expression of MHCII molecules on the surface of dendritic cells [57]
rs424138 DPYSL2 genic intron 0.671 Dihydropyrimidinase-like 2  
rs9952350 ZFP161 genic intron, eQTL 0.671 ZFP161 encodes a transcriptional repressor expressed at maximum levels in CD4+ T cells [85], SymAtlas
rs1143683 ITGAM genic missense (Ala858Val) 0.671 ITGAM combines with ITGB2 to form a leukocyte-specific integrin. ITGAM is the target of an immunomodulatory molecue secreted by Ancylostoma caninum [41]
  1. SNP are ranked according to τ values.
  2. a distance of the associated SNP from the candidate gene. In all cases the candidate gene was the known gene closest to the SNP.