Sample overview


Search result

SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_018900020 chr1:17559318-17598077 38759 20 13 1187 32 2 10 747 ARHGEF10L
SE_02_018900030 chr1:202007317-202018530 11213 30 10 325 21 2 81 1554 ELF3,RNPEP
SE_02_018900027 chr1:234599804-234619093 19289 27 9 546 38 2 0 780 IRF2BP2,NCRNA00184
SE_02_018900011 chr10:121068497-121106026 37529 11 6 1088 48 5 145 0 LOC283089
SE_02_018900006 chr10:121153628-121163566 9938 6 2 335 4 0 47 0 LOC283089
SE_02_018900004 chr10:121235390-121247015 11625 4 1 310 9 0 41 0 FGFR2
SE_02_018900018 chr10:121259771-121264213 4442 18 2 130 7 0 32 0 FGFR2
SE_02_018900036 chr10:121323823-121326166 2343 36 1 65 0 0 3 0 FGFR2
SE_02_018900034 chr10:121523110-121527257 4147 34 2 119 0 0 49 0 FGFR2
SE_02_018900002 chr10:121552185-121609417 57232 2 10 1675 21 26 353 615 FGFR2
SE_02_018900032 chr10:72292523-72332841 40318 32 11 1119 76 0 73 43 DNAJB12,DDIT4
SE_02_018900005 chr11:34903736-34931842 28106 5 3 895 252 3 33 301 APIP,PDHX
SE_02_018900026 chr11:34974985-34979524 4539 26 1 134 27 1 4 19 PDHX,APIP
SE_02_018900001 chr11:34995931-35018554 22623 1 4 575 64 1 72 12 PDHX,APIP
SE_02_018900025 chr11:35039975-35045048 5073 25 1 123 5 0 29 0 CD44
SE_02_018900003 chr11:35138358-35193521 55163 3 12 1650 92 16 303 477 CD44
SE_02_018900038 chr11:35235114-35238619 3505 38 1 104 18 1 10 0 CD44
SE_02_018900031 chr11:35274209-35277638 3429 31 1 94 5 0 11 0 SLC1A2,CD44
SE_02_018900014 chr11:36372043-36386196 14153 14 2 400 14 0 65 218 PRR5L
SE_02_018900046 chr11:65477006-65500714 23708 46 7 708 77 4 11 368 MALAT1,MIR612,SCYL1
SE_02_018900035 chr12:52143935-52149783 5848 35 6 200 14 0 13 0 KRT80
SE_02_018900029 chr12:53975028-53995283 20255 29 9 533 28 0 424 876 HOXC11,MIR196A2,HOXC10,HOTAIR,HOXC9,MIR615,HOXC12,HOXC13,HOXC8,HOXC6,HOXC4,HOXC5
SE_02_018900047 chr13:27952721-27966063 13342 47 9 341 20 0 40 405 CDX2,ATP5EP2,PRHOXNB,PDX1
SE_02_018900041 chr14:103872085-103897023 24938 41 9 737 95 3 27 0 TDRD9,PPP1R13B,C14ORF2
SE_02_018900040 chr14:20681391-20686673 5282 40 3 230 33 1 6 310 ANG,RNASE4,OR6S1
SE_02_018900016 chr15:44812321-44830933 18612 16 16 466 62 0 67 0 TRIM69
SE_02_018900019 chr15:45069957-45080933 10976 19 12 238 40 0 31 523 SORD,DUOX1,DUOXA1,DUOXA2,DUOX2
SE_02_018900021 chr16:67440852-67463201 22349 21 8 535 40 2 148 591 ATP6V0D1,AGRP,TPPP3,HSD11B2,ZDHHC1
SE_02_018900039 chr17:76638869-76658946 20077 39 6 595 115 0 0 105 ST6GALNAC1
SE_02_018900028 chr19:39398017-39410803 12786 28 8 306 16 0 185 1133 ZFP36,MED29,PLEKHG2,SUPT5H,RPS16,PAF1
SE_02_018900044 chr20:36085507-36098375 12868 44 9 257 14 0 58 224 LOC647979,EPB41L1
SE_02_018900023 chr20:363435-382792 19357 23 11 661 101 3 12 406 TRIB3,RBCK1,NRSN2,SOX12
SE_02_018900043 chr7:106058298-106072237 13939 43 7 399 33 2 33 0 SYPL1
SE_02_018900033 chr7:140229754-140244208 14454 33 8 389 19 3 0 0 LOC100134229
SE_02_018900045 chr7:5421222-5429853 8631 45 8 242 2 0 212 452 TNRC18
SE_02_018900017 chr7:73822911-73833862 10951 17 9 279 41 1 38 947 CLDN4,WBSCR28,WBSCR27
SE_02_018900037 chr7:93202877-93223626 20749 37 7 386 23 1 97 223 HEPACAM2,CCDC132
SE_02_018900009 chr8:126555830-126572527 16697 9 2 468 20 7 133 583 FAM84B
SE_02_018900015 chr8:127492471-127510829 18358 15 2 576 2 3 54 0 LOC727677
SE_02_018900010 chr8:127564553-127597261 32708 10 7 987 0 3 72 0 LOC727677
SE_02_018900022 chr8:127650711-127671714 21003 22 2 641 6 1 59 0 MYC
SE_02_018900007 chr8:127733709-127743478 9769 7 3 268 2 0 97 720 MYC
SE_02_018900008 chr8:127781775-127811169 29394 8 5 809 26 4 63 207 MIR1204,PVT1,MYC
SE_02_018900013 chr8:127831210-127854950 23740 13 8 723 17 0 28 0 PVT1,MIR1204
SE_02_018900012 chr8:127949626-127972433 22807 12 5 708 19 2 30 50 MIR1205,PVT1,MIR1206
SE_02_018900024 chr8:128023583-128036674 13091 24 2 401 0 1 10 0 PVT1,MIR1207,MIR1206
SE_02_018900042 chr9:129482195-129496574 14379 42 8 400 20 0 51 419 C9ORF50,METTL11A

SE annotation visualization


Information description of sample and annotation

Case ID: Name:GSM1960231
Input ID: Name:GSM1960232
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