SEdb 2.0
  1. Browse Super-Enhancer of biosample

Sample overview

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SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_058300030 chr1:108367793-108375063 7270 30 2 170 12 0 0 0 NBPF6,SLC25A24
SE_02_058300037 chr12:50509121-50579848 70727 37 20 1747 177 0 27 0 DIP2B
SE_02_058300024 chr12:96100986-96101417 431 24 1 4 0 0 0 0 LTA4H
SE_02_058300013 chr14:27860980-27861329 349 13 1 2 0 0 0 0 MIR3171,FOXG1-AS1
SE_02_058300011 chr15:24767305-24767689 384 11 1 8 0 0 0 0 SNRPN,PWRN1
SE_02_058300039 chr16:10293908-10334012 40104 39 12 1685 21 1 9 0 ATF7IP2
SE_02_058300014 chr16:78574867-78575226 359 14 1 8 0 0 0 0 WWOX
SE_02_058300034 chr17:7699310-7699657 347 34 1 4 1 0 0 0 WRAP53,EFNB3,TP53,ATP1B2,DNAH2
SE_02_058300002 chr19:42663150-42663823 673 2 1 2 0 0 0 0 CEACAM8
SE_02_058300006 chr19:56934109-56978624 44515 6 9 1487 61 5 38 0 MIMT1,PEG3
SE_02_058300007 chr2:135492963-135493318 355 7 1 7 1 0 0 0 ZRANB3,R3HDM1
SE_02_058300036 chr2:212014910-212015240 330 36 1 13 0 0 0 0 ERBB4,MIR548F2,LOC102725079
SE_02_058300040 chr2:231164884-231165226 342 40 1 20 0 0 1 14 PSMD1,ARMC9,HTR2B
SE_02_058300005 chr2:44408945-44409314 369 5 1 12 2 0 0 0 CAMKMT,PREPL
SE_02_058300035 chr2:71735372-71748283 12911 35 3 364 2 0 67 0 DYSF
SE_02_058300038 chr20:32322513-32326399 3886 38 4 78 13 0 1 0 KIF3B,ASXL1
SE_02_058300017 chr21:17085035-17085401 366 17 1 7 0 0 0 0 LINC01549
SE_02_058300001 chr3:144798930-144799719 789 1 1 9 0 0 0 0 C3ORF58
SE_02_058300023 chr3:197589820-197598752 8932 23 7 297 39 0 17 65 LOC220729,BDH1
SE_02_058300022 chr3:65193816-65194153 337 22 1 6 0 0 0 0 ADAMTS9
SE_02_058300008 chr3:89654778-89655127 349 8 1 3 0 0 0 0 EPHA3
SE_02_058300032 chr4:31582986-31583323 337 32 1 5 0 0 0 0 LOC102723778
SE_02_058300028 chr4:57783585-57783922 337 28 1 5 0 0 0 0 LOC101928851,IGFBP7
SE_02_058300010 chr5:25999312-25999656 344 10 1 6 0 0 0 0
SE_02_058300026 chr5:29235536-29235872 336 26 1 6 0 0 0 0 LOC101929660
SE_02_058300016 chr5:74104961-74119226 14265 16 3 385 29 1 61 0 LINC01335
SE_02_058300027 chr5_GL949742v1_alt:207926-208255 329 27 1 0 0 0 0 0
SE_02_058300029 chr6:67407231-67407723 492 29 1 7 0 0 0 0 LOC102723883
SE_02_058300021 chr6_GL000252v2_alt:2002281-2002676 395 21 1 0 0 0 0 0
SE_02_058300025 chr7:145019458-145020366 908 25 1 8 0 0 0 0 TPK1
SE_02_058300015 chr7:15189962-15190361 399 15 1 5 0 0 3 0 DGKB,AGMO
SE_02_058300003 chr7:23231672-23232045 373 3 1 11 0 0 0 0 GPNMB,NUPL2
SE_02_058300019 chr7:39454531-39454874 343 19 1 8 1 0 0 0 POU6F2,POU6F2-AS1
SE_02_058300031 chr7:99063092-99063439 347 31 1 2 0 0 0 0 SMURF1,LOC101927550
SE_02_058300020 chr8:95332901-95333285 384 20 1 10 1 0 0 0 C8ORF37-AS1,C8ORF37
SE_02_058300018 chr9:36341664-36341998 334 18 1 4 1 0 0 0 RNF38
SE_02_058300004 chr9:81511118-81511464 346 4 1 17 0 0 0 0 TLE1
SE_02_058300012 chrX:115125287-115125699 412 12 1 17 0 0 0 0 LRCH2,RBMXL3,IL13RA2
SE_02_058300033 chrX:155638161-155638508 347 33 1 3 0 0 0 0 SPRY3,TMLHE
SE_02_058300009 chrX:29315953-29323914 7961 9 2 144 0 0 22 0 IL1RAPL1,MIR4666B

SE annotation visualization

Information description of sample and annotation

Case ID: Name:GSM2946721
Input ID: Name:GSM2946724
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