Sample overview


Search result

SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_060700033 chr1:8019571-8099669 80098 33 27 1953 154 4 222 157 ERRFI1
SE_02_060700017 chr1:84140813-84186033 45220 17 11 941 23 1 85 255 PRKACB
SE_02_060700053 chr1:94280871-94328982 48111 53 16 1311 53 2 161 0 ARHGAP29
SE_02_060700011 chr10:112475199-112549762 74563 11 26 1813 15 2 320 102 VTI1A,ZDHHC6
SE_02_060700021 chr10:28078366-28146107 67741 21 25 1784 98 10 91 257 MPP7,ARMC4
SE_02_060700038 chr10:28199995-28256223 56228 38 23 1448 178 7 111 154 MPP7,MIR8086
SE_02_060700062 chr10:52307663-52337576 29913 62 12 843 32 1 85 538 DKK1,PRKG1-AS1
SE_02_060700057 chr10:52435057-52455298 20241 57 7 526 25 2 15 168 LINC01468
SE_02_060700064 chr10:99775000-99786460 11460 64 3 240 23 2 3 122 ABCC2,CUTC,COX15
SE_02_060700051 chr11:10646901-10671228 24327 51 10 718 78 5 81 126 MRVI1
SE_02_060700010 chr11:122132475-122201865 69390 10 28 1855 39 7 359 156 MIR100,MIRLET7A2,MIR100HG,MIR125B1,BLID
SE_02_060700054 chr11:65471838-65508791 36953 54 18 1061 111 4 50 963 MALAT1,SCYL1,LTBP3,NEAT1,MIR612
SE_02_060700066 chr12:37235313-37265946 30633 66 27 0 9 0 0 0
SE_02_060700045 chr12:46429596-46493221 63625 45 22 1551 117 1 141 0 LOC100288798
SE_02_060700044 chr12:65423864-65473042 49178 44 16 1239 64 8 23 445 MSRB3,LOC100507065
SE_02_060700036 chr12:65488019-65540160 52141 36 22 1462 50 6 149 0 LOC100507065
SE_02_060700039 chr12:65630268-65674010 43742 39 16 1215 44 0 150 0 LOC100507065
SE_02_060700052 chr12:65818339-65837793 19454 52 7 431 8 4 115 624 RPSAP52,HMGA2,LOC100129940
SE_02_060700022 chr12:75617553-75669406 51853 22 28 1444 152 4 133 0 KRR1
SE_02_060700016 chr12:75693304-75795935 102631 16 38 2895 105 7 210 0 KRR1
SE_02_060700012 chr12:88916879-88970882 54003 12 21 1215 30 4 175 0 LOC728084
SE_02_060700055 chr15:19775307-19789368 14061 55 11 0 6 0 0 0 CHEK2P2
SE_02_060700048 chr16:69395058-69418389 23331 48 10 568 49 0 77 0 TERF2,TMED6,CYB5B
SE_02_060700065 chr17:48236041-48266470 30429 65 8 597 81 7 344 0 SKAP1,THRA1/BTR
SE_02_060700031 chr17:59748775-59806108 57333 31 16 1203 119 5 91 71 VMP1,PTRH2,MIR21
SE_02_060700028 chr17:59826870-59853325 26455 28 12 584 52 1 98 260 MIR21,VMP1,RPS6KB1,TUBD1
SE_02_060700030 chr18:3594477-3627468 32991 30 21 877 56 5 53 685 DLGAP1,DLGAP1-AS2,DLGAP1-AS1
SE_02_060700061 chr18:3646444-3668061 21617 61 10 665 35 3 40 26 DLGAP1,DLGAP1-AS2
SE_02_060700059 chr18:70356957-70382625 25668 59 18 780 37 4 25 0 LOC101060542,LOC101927481
SE_02_060700025 chr2:181769986-181818695 48709 25 16 1331 35 0 146 0 SSFA2
SE_02_060700046 chr2:223523098-223577549 54451 46 17 1448 43 3 154 0 SCG2
SE_02_060700004 chr2:226023185-226218626 195441 4 72 5302 212 19 409 329 LOC646736
SE_02_060700029 chr2:226632783-226694999 62216 29 24 1868 17 2 211 48 MIR5702
SE_02_060700047 chr20:28487857-28498792 10935 47 7 0 1 0 0 0 FRG1CP
SE_02_060700063 chr22:46065731-46081992 16261 63 11 456 15 1 119 0 PRR34,MIR3619,LINC00899,PRR34-AS1,MIRLET7BHG,MIRLET7A3,MIR4763,MIRLET7B
SE_02_060700023 chr3:111888994-111943782 54788 23 23 1395 148 4 118 671 PHLDB2,ABHD10
SE_02_060700056 chr3:114638820-114660722 21902 56 12 516 7 4 168 0 ZBTB20
SE_02_060700001 chr3:93470402-93470791 389 1 1 0 0 0 0 0 PROS1
SE_02_060700020 chr3:98512766-98591890 79124 20 29 2086 167 10 222 1065 GPR15,CPOX,CLDND1,OR5K2,OR5K1
SE_02_060700050 chr3:98871121-98923865 52744 50 20 1376 122 1 97 321 DCBLD2
SE_02_060700026 chr3:98953014-98987110 34096 26 12 816 112 0 82 0 DCBLD2
SE_02_060700009 chr4:101098901-101172859 73958 9 25 1866 73 7 205 56 PPP3CA,MIR8066
SE_02_060700040 chr4:11602831-11652044 49213 40 18 1523 58 3 138 0 HS3ST1
SE_02_060700037 chr4:186803697-186847718 44021 37 17 1101 96 2 141 0 FAT1
SE_02_060700003 chr4:30714221-30978489 264268 3 89 7295 228 14 1526 917 PCDH7
SE_02_060700007 chr4:31006888-31122548 115660 7 57 3406 0 7 473 0 PCDH7,LOC102723778
SE_02_060700006 chr4:49708159-49711986 3827 6 3 0 0 0 0 0 CWH43,OCIAD2
SE_02_060700015 chr4:74618261-74683256 64995 15 16 1880 28 3 84 0 BTC
SE_02_060700024 chr5:49609731-49646561 36830 24 29 0 2 0 0 0 EMB
SE_02_060700035 chr6:129639111-129699686 60575 35 35 1596 71 14 153 40 ARHGAP18
SE_02_060700049 chr6:158686151-158739350 53199 49 17 1597 119 3 33 315 SYTL3,DYNLT1,MIR3918
SE_02_060700042 chr7:116672030-116715992 43962 42 22 1100 66 5 293 323 MET
SE_02_060700060 chr7:80271607-80285610 14003 60 4 339 13 1 39 0 LOC101927269
SE_02_060700041 chr8:125111189-125154934 43745 41 14 1112 48 1 140 31 NSMCE2,KIAA0196
SE_02_060700043 chr8:125643944-125702586 58642 43 23 1672 51 4 152 0 TRIB1
SE_02_060700027 chr8:127205111-127232680 27569 27 18 770 5 2 111 419 CCAT1,CASC21,CASC19
SE_02_060700034 chr8:43237556-43242149 4593 34 5 271 10 0 0 0 POTEA,HGSNAT
SE_02_060700005 chr8:93836682-93944737 108055 5 45 2997 183 11 334 733 PDP1,MIR378D2
SE_02_060700058 chr9:129476325-129497825 21500 58 10 593 30 0 75 419 LINC00963
SE_02_060700013 chr9:21534067-21597340 63273 13 12 1737 55 9 139 166 MIR31HG,MIR31
SE_02_060700018 chr9:21668192-21694319 26127 18 7 999 54 11 81 0 MTAP
SE_02_060700014 chr9:60552896-60688437 135541 14 112 0 0 0 0 0 SPATA31A5
SE_02_060700019 chrUn_KI270333v1:0-2699 2699 19 1 0 0 0 0 0
SE_02_060700032 chrUn_KI270337v1:0-1116 1116 32 1 0 0 0 0 0
SE_02_060700008 chrUn_KI270466v1:0-1233 1233 8 1 0 0 0 0 0
SE_02_060700002 chrUn_KI270467v1:793-3920 3127 2 1 0 0 0 0 0

SE annotation visualization


Information description of sample and annotation

Case ID: Name:GSM3020148
Input ID: Name:GSM3020143
Common SNP: dbSNP
eQTL: GTEx, HaploReg v4.1, PancanQTL
Risk SNP : GWAS Catalog, GWASdb v2.0
TFBS: TFBS Conserved of UCSC
CRISPR/Cas9 target site: CRISPR Targets of UCSC

Software and parameters used

Read Mapping: bowtie(v2.4.4) -p 10 -x -S -U
Peak Calling: macs2 callpeak -t -c -f BAM -B -g hs(mm) -q 0.01 --keep-dup=auto
Stitching Distance: 12.5 kb
TSS Exclusive Zone: +/- 2 kb