Sample overview


Search result

SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_111700022 chr1:93773718-93779484 5766 22 4 152 32 0 11 67 BCAR3,MIR760
SE_02_111700008 chr10:72243480-72261408 17928 8 5 512 51 0 86 0 DDIT4,ASCC1,ANAPC16
SE_02_111700016 chr10:72274066-72276364 2298 16 1 79 3 0 45 402 DDIT4
SE_02_111700004 chr10:72319140-72337197 18057 4 9 530 32 0 75 807 DNAJB12,DDIT4
SE_02_111700013 chr11:1826900-1836563 9663 13 2 384 22 1 49 750 SYT8,TNNI2,LSP1,MIR4298,MIR7847
SE_02_111700025 chr12:52146383-52149656 3273 25 3 121 6 0 11 0 KRT80
SE_02_111700023 chr12:65824624-65826960 2336 23 1 55 0 0 29 278 RPSAP52,HMGA2
SE_02_111700018 chr14:74567313-74572886 5573 18 3 174 23 2 24 0 LTBP2
SE_02_111700021 chr17:17686085-17695018 8933 21 2 246 12 0 64 0 RAI1,SMCR2
SE_02_111700028 chr17:40487023-40499399 12376 28 3 335 22 2 43 488 TNS4,IGFBP4
SE_02_111700019 chr17:43241812-43252277 10465 19 3 0 0 0 0 0 RNU2-1,TMEM106A,LINC00854
SE_02_111700010 chr17:43266767-43300911 34144 10 7 0 0 0 0 0 RNU2-1,LINC00854
SE_02_111700012 chr17:75685371-75698025 12654 12 6 355 16 3 24 294 SAP30BP,SMIM5,ITGB4,SMIM6,RECQL5
SE_02_111700024 chr19:1250615-1261789 11174 24 2 456 5 0 127 1266 MIDN,C19ORF24,CIRBP,CIRBP-AS1,ATP5D,STK11,CBARP,EFNA2
SE_02_111700029 chr19:13152283-13165230 12947 29 3 346 28 1 93 519 IER2,STX10,LYL1,TRMT1,NACC1
SE_02_111700026 chr19:13842315-13850972 8657 26 3 216 21 0 99 0 NANOS3,LOC284454,MIR23A,ZSWIM4,MIR27A,MIR24-2,MIR181D,MIR181C
SE_02_111700020 chr2:160220939-160229625 8686 20 3 277 25 1 34 0 ITGB6,LOC100505984
SE_02_111700017 chr20:23154894-23162184 7290 17 2 255 17 3 19 0 LINC00656
SE_02_111700002 chr20:31059861-31072146 12285 2 4 0 0 0 0 0 DEFB115
SE_02_111700014 chr20:35305244-35312194 6950 14 5 147 10 4 0 251 UQCC1,EIF6,FAM83C-AS1,MMP24-AS1,FAM83C
SE_02_111700011 chr20:47350853-47360139 9286 11 4 195 2 1 110 652 ZMYND8,LOC100131496
SE_02_111700009 chr20:50415983-50440522 24539 9 5 699 33 2 4 0 PTPN1
SE_02_111700007 chr22:46055782-46081875 26093 7 9 733 36 3 170 397 PRR34-AS1,PRR34,MIR3619,LINC00899,LOC730668,MIRLET7BHG,MIRLET7A3,MIR4763,MIRLET7B
SE_02_111700006 chr4:49139450-49154853 15403 6 5 551 1 0 0 0 CWH43,OCIAD2
SE_02_111700005 chr5:49601527-49602894 1367 5 1 0 0 0 0 0 EMB
SE_02_111700001 chr5:49658470-49666533 8063 1 4 0 0 0 0 0 EMB
SE_02_111700027 chr6:44033809-44042954 9145 27 2 283 13 1 5 0 LOC101929705,C6ORF223
SE_02_111700015 chr7:56371721-56374725 3004 15 3 18 0 0 0 0 LOC650226,CHCHD2
SE_02_111700003 chr8:127205695-127225664 19969 3 8 569 5 1 104 360 CCAT1,CASC21,CASC19

SE annotation visualization


Information description of sample and annotation

Case ID: Name:GSM4138858
Input ID: Name:GSM4138864
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