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ALL Methylation Supplementary Table 4-6

List of highly correlated Refseq genes with upregulated FDR<0.05 and hypomethylated FDR<0.05 in Hyper_B

RefSeq Genes Annotation Cytoband Max Pearson Corr Estimate P Max Pearson Corr Max Pearson Corr Affy Probe GEP FC GEP FDR GEP Common Rank Max Pearson Corr HELP Probe MET Delta MET FDR
NM_003054 SLC18A2 solute carrier family 18 (vesicular monoamine), member 2 chr10q25 0.613810645 1.69E-14 205857_at -1.748474989 0.008993029 1440 / 12428 MSPI0406S00537892 -0.758825505 0.002027775
NM_014957 DENND3 DENN/MADD domain containing 3 chr8q24.3 0.574958436 1.56E-12 212975_at -1.66526133 0.01379286 1683 / 12428 MSPI0406S00447241 -0.560744807 0.001841196
NM_001470 GABBR1 gamma-aminobutyric acid (GABA) B receptor, 1 chr6p21.31 0.537646333 7.14E-11 203146_s_at -1.711937045 0.001205259 726 / 12428 MSPI0406S00314790 -0.771566221 0.018785759
NM_002163 IRF8 interferon regulatory factor 8 chr16q24.1 0.498756905 2.41E-09 204057_at -2.063503897 5.18E-06 129 / 12428 MSPI0406S00775844 -1.330086653 2.41E-05
NM_003263 TLR1 toll-like receptor 1 chr4p14 0.49194232 4.26E-09 210176_at -1.596847178 5.47E-05 272 / 12428 MSPI0406S00228209 -1.260143254 2.22E-05
NM_006255 PRKCH protein kinase C, eta chr14q22-q23 0.486486656 6.68E-09 218764_at -1.555227686 0.01494792 1730 / 12428 MSPI0406S00677327 -1.448957935 0.002116441
NM_005567 LGALS3BP lectin, galactoside-binding, soluble, 3 binding protein chr17q25 0.446470156 1.43E-07 200923_at -2.010707049 0.000319282 476 / 12428 MSPI0406S00829919 -0.375114748 0.009924324
NM_001560 IL13RA1 interleukin 13 receptor, alpha 1 chrXq24 0.441240484 2.08E-07 201887_at -2.711461939 1.17E-09 10 / 12428 MSPI0406S01010806 -1.741327057 1.11E-10
NM_001040138 CKLF chemokine-like factor chr16q21 0.441215099 2.08E-07 219161_s_at -1.596847024 0.002369034 932 / 12428 MSPI0406S00763943 -0.694585656 8.10E-09
NM_001769 CD9 CD9 molecule chr12p13.3 0.438555 2.51E-07 201005_at -2.995050689 0.002060488 873 / 12428 MSPI0406S00600155 -0.39217077 0.049044741
NM_000211 ITGB2 integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) chr21q22.3 0.41795587 1.01E-06 202803_s_at -2.356632928 1.60E-07 33 / 12428 MSPI0406S00952182 -1.036185691 8.79E-05
NM_004479 FUT7 fucosyltransferase 7 (alpha (1,3) fucosyltransferase) chr9q34.3 0.40716325 2.03E-06 210506_at -2.371277962 0.000103099 342 / 12428 MSPI0406S00495548 -0.474652363 4.79E-06
NM_000601 HGF hepatocyte growth factor (hepapoietin A; scatter factor) chr7q21.1 0.402189185 2.77E-06 209960_at -1.587001288 0.004207038 1111 / 12428 MSPI0406S00383289 -0.990657537 6.88E-06
NM_213602 SIGLEC15 sialic acid binding Ig-like lectin 15 chr18q12.3 0.390809721 5.55E-06 215856_at -1.761848948 0.005945955 1246 / 12428 MSPI0406S00847655 -1.043397123 2.30E-06
NM_000565 IL6R interleukin 6 receptor chr1q21 0.389533983 6.00E-06 205945_at -3.362041151 8.12E-09 15 / 12428 MSPI0406S00056802 -0.534100353 0.000917617
NM_001142276 APLP2 amyloid beta (A4) precursor-like protein 2 chr11q23-q25|11q24 0.35679126 3.83E-05 208248_x_at -1.56113239 0.001970859 863 / 12428 MSPI0406S00594300 -0.549280273 0.003505114
NM_002463 MX2 myxovirus (influenza virus) resistance 2 (mouse) chr21q22.3 0.34846572 5.95E-05 204994_at -1.426130042 0.004814346 1163 / 12428 MSPI0406S00948355 -1.769895853 1.86E-23
NM_002664 PLEK pleckstrin chr2p14-p13.3 0.345601398 6.90E-05 203471_s_at -1.630546568 0.000155293 385 / 12428 MSPI0406S00111734 -1.380701494 1.75E-11
NM_001007026 ATN1 atrophin 1 chr12p13.31 0.336245472 0.000111096 40489_at -1.469278497 0.003871119 1075 / 12428 MSPI0406S00600933 -0.539603858 0.000215047
NM_004425 ECM1 extracellular matrix protein 1 chr1q21 0.332704831 0.000132488 209365_s_at -1.795029298 0.024246584 2039 / 12428 MSPI0406S00054603 -0.864971895 0.00021424
NM_004232 SOCS6 suppressor of cytokine signaling 6 chr18q22.2 0.331811679 0.000138459 206020_at -1.408515215 0.012742647 1646 / 12428 MSPI0406S00854096 -0.793566965 8.28E-05
NM_001136219 FCGR2A Fc fragment of IgG, low affinity IIa, receptor (CD32) chr1q23 0.330553784 0.000147295 203561_at -1.397528247 0.03929915 2446 / 12428 MSPI0406S00060589 -1.45205213 1.12E-06
NM_001032393 HNRNPH2 heterogeneous nuclear ribonucleoprotein H2 (H') chrXq22 0.330111109 0.000150528 201132_at -1.687087964 1.60E-07 35 / 12428 MSPI0406S01007587 -0.194621456 0.0234317
NM_001800 CDKN2D cyclin-dependent kinase inhibitor 2D (p19, inhibits CDK4) chr19p13 0.328821665 0.000160323 210240_s_at -1.376615284 0.032854888 2290 / 12428 MSPI0406S00871760 -0.304913645 0.003521832
NM_004414 RCAN1 regulator of calcineurin 1 chr21q22.1-q22.2|21q22.12 0.320623227 0.000237825 208370_s_at -1.905540498 0.003666473 1062 / 12428 MSPI0406S00945298 -0.63882834 0.000103732
NM_006315 PCGF3 polycomb group ring finger 3 chr4p16.3 0.317165 0.000279933 204564_at -1.61787345 0.000359131 498 / 12428 MSPI0406S00215136 -0.273770926 0.018810619
NM_000169 GLA galactosidase, alpha chrXq22 0.310890815 0.000374405 214430_at -1.311053681 0.003162741 1019 / 12428 MSPI0406S01007587 -0.194621456 0.0234317
NM_001606 ABCA2 ATP-binding cassette, sub-family A (ABC1), member 2 chr9q34 0.308528403 0.00041704 212772_s_at -1.316535193 0.012572229 1638 / 12428 MSPI0406S00495547 -0.564569578 4.61E-05
NM_001098790 MID1IP1 MID1 interacting protein 1 (gastrulation specific G12 homolog (zebrafish)) chrXp11.4 0.306604911 0.000455014 218251_at -1.351293902 0.014695719 1724 / 12428 MSPI0406S00993644 -0.317216834 0.007160442
NM_002802 PSMC1 proteasome (prosome, macropain) 26S subunit, ATPase, 1 chr14q32.11 0.298536127 0.00065165 204219_s_at -1.215042006 0.011538541 1572 / 12428 MSPI0406S00686827 -0.393069108 0.047665203
NM_001025242 IRAK1 interleukin-1 receptor-associated kinase 1 chrXq28 0.294468593 0.000777978 201587_s_at -1.431223518 0.000707358 605 / 12428 MSPI0406S01019774 -0.773213145 1.65E-05
NM_001080425 BEX4 brain expressed, X-linked 4 chrXq22.1-q22.3 0.285615541 0.001134009 215440_s_at -2.039947884 0.000891267 652 / 12428 MSPI0406S01008092 -0.694202294 0.000509552
NM_001100398 GARNL4 GTPase activating Rap/RanGAP domain-like 4 chr17p13.3 0.285464128 0.001141221 213280_at -1.863335597 0.000632869 582 / 12428 MSPI0406S00783939 -0.603083878 1.18E-05
NM_015675 GADD45B growth arrest and DNA-damage-inducible, beta chr19p13.3 0.279806903 0.001442673 207574_s_at -1.85858449 0.001301243 752 / 12428 MSPI0406S00861947 -0.777133104 1.63E-05
NM_015680 C2orf24 chromosome 2 open reading frame 24 chr2q35 0.277019002 0.001616457 207511_s_at -1.300716246 0.04747666 2616 / 12428 MSPI0406S00150035 -1.097524686 2.71E-07
NM_006589 FAM189B family with sequence similarity 189, member B chr1q21 0.27423452 0.001808823 203550_s_at -1.574429075 0.024664236 2048 / 12428 MSPI0406S00057578 -1.468887376 7.27E-08
NM_001641 APEX1 APEX nuclease (multifunctional DNA repair enzyme) 1 chr14q11.2-q12 0.271236414 0.002038989 210027_s_at -1.314475629 0.006591543 1285 / 12428 MSPI0406S00667526 -0.800877281 0.000302792
NM_001183 ATP6AP1 ATPase, H+ transporting, lysosomal accessory protein 1 chrXq28 0.271012434 0.002057206 207809_s_at -1.511695955 9.67E-06 163 / 12428 MSPI0406S01020198 -0.4836282 0.010474166
NM_001099410 GPRASP1 G protein-coupled receptor associated sorting protein 1 chrXq22.1 0.269158751 0.002213732 204793_at -3.359081907 5.99E-10 8 / 12428 MSPI0406S01007933 -0.303564977 0.035087888
NM_005601 NKG7 natural killer cell group 7 sequence chr19q13.41 0.267963747 0.002320274 213915_at -2.020114418 0.001459649 773 / 12428 MSPI0406S00903780 -0.997895484 7.13E-06
NM_007131 ZNF75D zinc finger protein 75D chrXq26.3 0.25773787 0.00343978 214813_at -1.428942564 3.56E-05 228 / 12428 MSPI0406S01014834 -0.544602548 0.009154328
NM_006403 NEDD9 neural precursor cell expressed, developmentally down-regulated 9 chr6p25-p24 0.256641227 0.003584911 202150_s_at -1.486313385 0.01811396 1873 / 12428 MSPI0406S00308254 -1.059730701 2.73E-05
NM_007213 PRAF2 PRA1 domain family, member 2 chrXp11.23 0.256122971 0.003655393 203456_at -1.732016416 0.000839837 635 / 12428 MSPI0406S00998043 -0.729638826 7.85E-05
NM_001945 HBEGF heparin-binding EGF-like growth factor chr5q23 0.252943088 0.004115767 203821_at -3.111888329 0.000279363 458 / 12428 MSPI0406S00286985 -0.885761078 0.030639232
NM_003831 RIOK3 RIO kinase 3 (yeast) chr18q11.2 0.251550991 0.004333183 202131_s_at -1.339193333 0.0058409 1244 / 12428 MSPI0406S00843587 -0.138508898 0.038679187
NM_003681 PDXK pyridoxal (pyridoxine, vitamin B6) kinase chr21q22.3 0.247045606 0.00510909 202671_s_at -3.458033417 6.63E-07 70 / 12428 MSPI0406S00950695 -0.447461573 0.004125379
NM_003358 UGCG UDP-glucose ceramide glucosyltransferase chr9q31 0.245771077 0.005350015 221765_at -1.429597382 0.016087967 1782 / 12428 MSPI0406S00477892 -0.597307494 0.003346405
NM_007021 C10orf10 chromosome 10 open reading frame 10 chr10q11.21 0.243713812 0.005760333 209182_s_at -1.738604578 0.008307736 1397 / 12428 MSPI0406S00514015 -0.464800101 0.002470674
NM_007331 WHSC1 Wolf-Hirschhorn syndrome candidate 1 chr4p16.3 0.242094422 0.006102795 209054_s_at -1.241405987 0.007667737 1367 / 12428 MSPI0406S00216568 -0.164859886 0.02741996
NM_017523 XAF1 XIAP associated factor 1 chr17p13.1 0.241565585 0.006218491 206133_at -1.912964407 0.001531945 785 / 12428 MSPI0406S00787441 -1.020649475 1.44E-07
NM_001005333 MAGED1 melanoma antigen family D, 1 chrXp11.23 0.240747077 0.006401409 209014_at -1.378140475 0.019179672 1913 / 12428 MSPI0406S00998773 -0.418061864 0.001259752
NM_001100590 KIAA0232 KIAA0232 chr4p16.1 0.239107028 0.006782375 212441_at -1.206151576 0.016153447 1783 / 12428 MSPI0406S00220410 -0.40721826 0.027942227
NM_001154 ANXA5 annexin A5 chr4q26-q28|4q28-q32 0.238680654 0.006884657 200782_at -2.60722019 3.14E-05 216 / 12428 MSPI0406S00242022 -0.688700689 0.026787144
NM_001080463 DYNC2H1 dynein, cytoplasmic 2, heavy chain 1 chr11q21-q22.1 0.237824826 0.0070941 219469_at -1.594652763 0.000172055 403 / 12428 MSPI0406S00584328 -0.685502457 0.03914707
NM_006504 PTPRE protein tyrosine phosphatase, receptor type, E chr10q26 0.237203252 0.007249738 221840_at -1.670376967 0.00015116 382 / 12428 MSPI0406S00543310 -0.88174819 0.010065694
NM_004740 MYO18A /// TIAF1 myosin XVIIIA /// TGFB1-induced anti-apoptotic factor 1 chr17q11.2 0.234398705 0.007990257 202039_at -1.4999253 0.000896445 654 / 12428 MSPI0406S00799003 -0.502347839 0.000115833
NM_001009932 DNASE1L1 deoxyribonuclease I-like 1 chrXq28 0.228883286 0.009644106 203912_s_at -1.697619646 0.000110326 346 / 12428 MSPI0406S01020170 -0.604461468 0.00167355
NM_001136023 NFE2 nuclear factor (erythroid-derived 2), 45kDa chr12q13 0.225586964 0.010770448 209930_s_at -2.535155308 0.000197607 417 / 12428 MSPI0406S00614592 -0.503728379 0.032568154
NM_002339 LSP1 lymphocyte-specific protein 1 chr11p15.5 0.22419706 0.01127899 203523_at -3.173222181 4.49E-07 54 / 12428 MSPI0406S00550400 -0.589385394 0.000119238
NM_019105 TNXA /// TNXB tenascin XA pseudogene /// tenascin XB chr6p21.3 0.222837342 0.011796748 216333_x_at -1.505289477 0.004386713 1129 / 12428 MSPI0406S00316585 -1.178273411 1.45E-10
NM_004715 CTDP1 CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1 chr18q23 0.218673525 0.013513982 205035_at -1.333372687 0.023566915 2018 / 12428 MSPI0406S00858021 -0.906600912 0.002207035
NM_001025593 ARFIP1 ADP-ribosylation factor interacting protein 1 chr4q31.3 0.216055679 0.01470202 214483_s_at -1.34341877 0.016722662 1813 / 12428 MSPI0406S00247066 -0.666907433 0.020212226
NM_024576 OGFRL1 opioid growth factor receptor-like 1 chr6q13 0.212296873 0.016566502 219582_at -2.056525319 1.77E-06 95 / 12428 MSPI0406S00327761 -0.675284536 0.011587458
NM_001145855 SH3BP2 SH3-domain binding protein 2 chr4p16.3 0.211466857 0.017004825 209370_s_at -2.055170271 6.11E-06 134 / 12428 MSPI0406S00217377 -0.390081093 0.000295495
NM_000389 CDKN1A cyclin-dependent kinase inhibitor 1A (p21, Cip1) chr6p21.2 0.204982018 0.020789001 202284_s_at -1.690269569 0.012489659 1627 / 12428 MSPI0406S00319805 -0.442604266 0.00086076
NM_006932 SMTN smoothelin chr22q12.2 0.204834071 0.020883182 207390_s_at -1.484150491 0.044409911 2561 / 12428 MSPI0406S00964987 -1.262889803 1.04E-06
NM_003307 TRPM2 transient receptor potential cation channel, subfamily M, member 2 chr21q22.3 0.200592259 0.023744177 205708_s_at -1.523698323 0.002799723 989 / 12428 MSPI0406S00951559 -0.13156695 0.031077127
NM_007162 TFEB transcription factor EB chr6p21 0.19979381 0.024318705 221866_at -1.330404918 0.035378261 2357 / 12428 MSPI0406S00322144 -0.582307312 0.00748415
NM_001018073 PCK2 phosphoenolpyruvate carboxykinase 2 (mitochondrial) chr14q11.2 0.198542215 0.025243241 202847_at -1.206890508 0.008363415 1400 / 12428 MSPI0406S00669421 -0.394767391 0.007912562
NM_000365 TPI1 triosephosphate isomerase 1 chr12p13 0.196151463 0.02709297 213011_s_at -1.246150458 0.032366132 2272 / 12428 MSPI0406S00600876 -0.934498125 0.000358339
NM_001145771 GPR56 G protein-coupled receptor 56 chr16q12.2-q21 0.195730595 0.027430281 212070_at -2.043183286 0.018928902 1899 / 12428 MSPI0406S00761716 -0.959054106 4.72E-06
NM_001186 BACH1 BTB and CNC homology 1, basic leucine zipper transcription factor 1 chr21q22.11 0.194982653 0.028038566 204194_at -1.534822366 0.000300837 470 / 12428 MSPI0406S00943034 -1.026654934 2.44E-06
NM_007192 SUPT16H suppressor of Ty 16 homolog (S. cerevisiae) chr14q11.2 0.1911443 0.031343986 217815_at -1.36330955 4.58E-05 252 / 12428 MSPI0406S00668057 -0.908869991 4.48E-09
NM_004614 TK2 thymidine kinase 2, mitochondrial chr16q22-q23.1 0.188862221 0.033461528 204227_s_at -1.219695632 0.024783488 2053 / 12428 MSPI0406S00763943 -0.694585656 8.10E-09
NM_001697 ATP5O ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit chr21q22.1-q22.2|21q22.11 0.185969499 0.036318309 221677_s_at -1.693456683 2.98E-07 48 / 12428 MSPI0406S00944973 -0.316012002 0.003998817
NM_016021 UBE2J1 ubiquitin-conjugating enzyme E2, J1 (UBC6 homolog, yeast) chr6q15 0.181395755 0.041252931 217823_s_at -1.556215215 0.000826278 630 / 12428 MSPI0406S00330769 -0.619985732 0.039255168
NM_024648 C17orf101 chromosome 17 open reading frame 101 chr17q25.3 0.178514907 0.044640158 64438_at -1.324126154 0.003225878 1027 / 12428 MSPI0406S00834301 -0.205941041 0.003151137
NM_000896 CYP4F3 cytochrome P450, family 4, subfamily F, polypeptide 3 chr19p13.2 0.178308052 0.044892041 206515_at -1.355701968 0.040345405 2475 / 12428 MSPI0406S00877063 -0.722211197 0.001715128
NM_001007 RPS4X ribosomal protein S4, X-linked chrXq13.1 0.178128557 0.045111568 217019_at -1.788272822 0.000477312 538 / 12428 MSPI0406S01003529 -0.541832921 0.000162174
NM_001159291 MICAL1 microtubule associated monoxygenase, calponin and LIM domain containing 1 chr6q21 0.177893151 0.045400829 218376_s_at -2.10982531 5.54E-07 66 / 12428 MSPI0406S00334252 -0.412788586 6.90E-05
NM_002028 FNTB farnesyltransferase, CAAX box, beta chr14q23-q24 0.176535642 0.047099189 1773_at -1.339901125 0.030960733 2235 / 12428 MSPI0406S00678615 -0.360597788 0.003078721
NM_016293 BIN2 bridging integrator 2 chr12q13 0.175703856 0.048165673 219191_s_at -1.596527353 0.0385748 2433 / 12428 MSPI0406S00612485 -0.687224723 1.48E-05
NM_001031733 CALML4 calmodulin-like 4 chr15q23 0.174775113 0.049380076 64408_s_at -1.477470163 0.005046096 1183 / 12428 MSPI0406S00716987 -1.057578459 8.80E-08