Sample overview


Search result

SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_112400024 chr1:150561107-150562028 921 24 2 20 1 0 1 0 ADAMTSL4-AS1,FALEC,ADAMTSL4,MCL1,MIR4257
SE_02_112400018 chr1:156104465-156106179 1714 18 2 40 2 1 5 0 LMNA,LAMTOR2,RAB25,SEMA4A,MEX3A
SE_02_112400009 chr1:16895938-16905725 9787 9 4 422 37 0 0 64 RNVU1-18,CROCC
SE_02_112400027 chr11:111735481-111736388 907 27 2 24 3 1 6 7 PPP2R1B
SE_02_112400003 chr11:114155048-114164844 9796 3 5 283 5 2 101 100 ZBTB16
SE_02_112400007 chr11:310603-318407 7804 7 2 192 15 0 1 290 IFITM1,ATHL1,IFITM3,IFITM5,NLRP6,IFITM2
SE_02_112400025 chr11:65477159-65478084 925 25 3 24 1 0 0 0 SCYL1,MIR612,MALAT1
SE_02_112400017 chr12:121800421-121801373 952 17 4 27 4 0 10 0 LINC01089,RHOF,SETD1B
SE_02_112400026 chr12:53370989-53372372 1383 26 2 35 0 0 4 0 SP1,SP7,AAAS
SE_02_112400014 chr14:34546513-34556651 10138 14 2 226 20 0 2 0 RNVU1-18,EAPP
SE_02_112400013 chr17:43241335-43246433 5098 13 4 0 0 0 0 0 RNU2-1,TMEM106A,LINC00854
SE_02_112400001 chr17:43267049-43300931 33882 1 16 0 0 0 0 0 RNU2-1,LINC00854
SE_02_112400006 chr17:7834373-7843604 9231 6 5 224 14 1 227 100 KDM6B,CYB5D1,CHD3,TMEM88,NAA38
SE_02_112400022 chr17:82586209-82586522 313 22 2 4 0 0 0 60 FOXK2,WDR45B
SE_02_112400002 chr19:12777907-12789554 11647 2 4 278 24 0 135 0 MIR5684,BEST2,RTBDN,ASNA1,HOOK2,RNASEH2A,PRDX2,JUNB,C19ORF43,MAST1
SE_02_112400005 chr19:13842693-13851616 8923 5 3 233 22 0 109 0 NANOS3,LOC284454,MIR23A,ZSWIM4,MIR27A,MIR24-2,MIR181D,MIR181C
SE_02_112400012 chr19:3398657-3405070 6413 12 3 181 9 0 10 0 NFIC
SE_02_112400019 chr19:39402346-39403727 1381 19 4 26 2 0 26 0 ZFP36,PLEKHG2,SUPT5H,RPS16,PAF1,MED29,MIR4530
SE_02_112400015 chr19:40802073-40806516 4443 15 2 110 17 6 13 30 RAB4B-EGLN2,EGLN2,MIA,MIA-RAB4B,CYP2A6
SE_02_112400010 chr19:6058427-6066562 8135 10 3 234 16 0 0 0 RFX2
SE_02_112400008 chr2:231604500-231614747 10247 8 3 272 33 0 82 0 C2ORF57,NMUR1
SE_02_112400011 chr5:10117-10589 472 11 2 20 0 0 0 0 PLEKHG4B,LRRC14B
SE_02_112400021 chr6:35731615-35732881 1266 21 3 42 1 0 5 166 LOC285847,CLPSL2,FKBP5,ARMC12,CLPSL1
SE_02_112400016 chr6:42783018-42784297 1279 16 4 34 3 0 7 0 TBCC,GLTSCR1L
SE_02_112400020 chr9:129482264-129483886 1622 20 3 35 3 0 10 130 LINC00963
SE_02_112400004 chrX:115847347-115865201 17854 4 3 3 0 0 0 0 DANT2,PLS3-AS1
SE_02_112400023 chrX:156030383-156030708 325 23 2 0 0 0 0 0 IL9R,DDX11L16

SE annotation visualization


Information description of sample and annotation

Case ID: Name:GSM4663967
Input ID: Name:GSM4663989
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