Sample overview


Search result

SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_081300011 chr11:65419200-65419860 660 11 2 12 0 0 2 0 SLC25A45,FRMD8,MIR612,NEAT1
SE_02_081300005 chr12:52146324-52148186 1862 5 3 79 6 0 7 0 KRT80
SE_02_081300015 chr14:34546534-34556621 10087 15 2 226 20 0 2 0 RNVU1-18,EAPP
SE_02_081300003 chr15:100714222-100719536 5314 3 2 177 4 0 6 0 ASB7
SE_02_081300014 chr16:3158304-3158655 351 14 1 9 0 0 0 0 ZNF205,CASP16P,OR1F1,ZNF213,ZNF213-AS1,ZNF205-AS1
SE_02_081300002 chr17:41653656-41656550 2894 2 3 91 9 0 24 0 EIF1,KRT17,KRT16,KRT42P
SE_02_081300016 chr17:43241798-43242031 233 16 1 0 0 0 0 0 RNU2-1,TMEM106A,LINC00854
SE_02_081300001 chr17:43273718-43300953 27235 1 5 0 0 0 0 0 RNU2-1,LINC00854
SE_02_081300009 chr17:7835278-7836662 1384 9 2 30 3 1 31 0 KDM6B,CHD3,TMEM88,NAA38,CYB5D1
SE_02_081300006 chr19:13843337-13847359 4022 6 2 114 11 0 55 0 NANOS3,LOC284454,MIR23A,ZSWIM4,MIR27A,MIR24-2,MIR181D,MIR181C
SE_02_081300010 chr22:36329040-36330896 1856 10 2 67 0 0 18 0 MYH9,MIR6819
SE_02_081300012 chr3:159764397-159764991 594 12 2 16 0 0 23 158 IQCJ-SCHIP1,SCHIP1,IQCJ-SCHIP1-AS1
SE_02_081300008 chr5:911642-913452 1810 8 3 67 8 0 16 65 TRIP13,BRD9
SE_02_081300004 chr7:27044727-27045465 738 4 1 27 2 0 0 0 HOXA1
SE_02_081300007 chr7:538569-539406 837 7 2 55 4 0 0 0 PDGFA,LOC101927000,HRAT92
SE_02_081300013 chr9:87758282-87758621 339 13 1 4 0 0 0 0 CTSL,CTSL3P

SE annotation visualization


Information description of sample and annotation

Case ID: Name:GSM3406695
Input ID: Name:GSM3406684
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