Sample overview


Search result

SE ID SE Region Size Rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_052800048 chr1:156498058-156504863 6805 48 2 160 9 2 77 240 MEF2D
SE_02_052800069 chr1:15834373-15837583 3210 69 4 120 14 2 10 536 FLJ37453,SPEN,UQCRHL
SE_02_052800010 chr1:228630544-228642515 11971 10 10 32 1 0 0 0 RNA5S2,RNA5S3,RNA5S4,RHOU,RNA5S5,RNA5S6,MIR7641-2,RNA5S9,RNA5S10,DUSP5P1,RNA5S15
SE_02_052800007 chr1:234599661-234612723 13062 7 10 365 22 2 0 780 IRF2BP2,LOC101927787,LINC00184
SE_02_052800062 chr1:234978835-234981558 2723 62 4 73 6 0 28 0 LOC101927851
SE_02_052800049 chr1:244854133-244860254 6121 49 6 169 9 0 76 403 HNRNPU,COX20,HNRNPU-AS1
SE_02_052800003 chr1:92479209-92489134 9925 3 4 239 20 1 86 832 GFI1
SE_02_052800019 chr10:123136532-123146332 9800 19 7 268 2 0 147 255 HMX3,HMX2,BUB3
SE_02_052800070 chr10:132419877-132422868 2991 70 3 103 11 0 7 0 PWWP2B,C10ORF91
SE_02_052800052 chr10:69058207-69066048 7841 52 4 194 18 0 3 0 SRGN
SE_02_052800067 chr10:87865416-87869535 4119 67 3 94 0 0 21 0 PTEN,CFL1P1,ATAD1,KLLN
SE_02_052800038 chr11:47390930-47395727 4797 38 3 132 14 1 89 0 SPI1,SLC39A13,MIR4487,MYBPC3,PSMC3
SE_02_052800071 chr11:60186930-60194746 7816 71 3 267 17 4 0 0 MIR6503,MS4A6A
SE_02_052800004 chr11:94543058-94551769 8711 4 6 222 16 1 38 909 FUT4,C11ORF97,MRE11A,PIWIL4,ANKRD49
SE_02_052800058 chr12:121799879-121802086 2207 58 3 59 7 0 24 175 LINC01089,RHOF,SETD1B
SE_02_052800046 chr12:124917839-124939952 22113 46 3 730 19 3 0 385 UBC,MIR5188,DHX37
SE_02_052800009 chr12:12716327-12724725 8398 9 5 257 9 2 111 486 CDKN1B,APOLD1,MIR613,GPR19
SE_02_052800068 chr12:66235449-66242779 7330 68 3 184 20 2 7 0 IRAK3,MIR6502
SE_02_052800051 chr12:6953146-6961477 8331 51 4 290 15 2 91 1040 PTPN6,MIR141,ENO2,MIR200C,SCARNA12,PHB2,RNU7-1,LRRC23,C12ORF57,ATN1,EMG1
SE_02_052800072 chr13:28141125-28143466 2341 72 5 63 2 1 2 0 PAN3,FLT3,PAN3-AS1
SE_02_052800039 chr15:28718546-28727825 9279 39 6 218 18 0 0 0 GOLGA8M,WHAMMP2
SE_02_052800025 chr15:30418896-30430617 11721 25 8 12 1 0 0 0 GOLGA8R,CHRFAM7A
SE_02_052800059 chr15:50108930-50111675 2745 59 3 50 4 0 10 0 ATP8B4
SE_02_052800056 chr15:90654534-90665784 11250 56 3 360 56 1 10 350 LINC01585,CRTC3-AS1
SE_02_052800074 chr15:92808082-92811342 3260 74 4 130 1 0 15 0 ASB9P1,LINC01578
SE_02_052800066 chr15_KI270905v1_alt:2710609-2715513 4904 66 3 0 0 0 0 0
SE_02_052800050 chr15_KI270905v1_alt:2822584-2830955 8371 50 5 0 0 0 0 0
SE_02_052800017 chr15_KI270905v1_alt:994109-1014155 20046 17 9 0 0 0 0 0 WHAMMP2
SE_02_052800006 chr17:43231393-43252544 21151 6 5 0 0 0 0 0 RNU2-1,TMEM106A,LINC00854
SE_02_052800002 chr17:43266790-43301071 34281 2 9 0 0 0 0 0 RNU2-1,LINC00854
SE_02_052800024 chr17:58333450-58344106 10656 24 4 265 20 2 36 227 BZRAP1-AS1,MIR4736,MIR142,BZRAP1,SUPT4H1
SE_02_052800020 chr17:81340297-81345896 5599 20 4 155 8 0 66 0 LINC00482,LOC100130370,TMEM105,SLC38A10
SE_02_052800055 chr17:81395765-81398094 2329 55 2 68 3 0 38 0 BAHCC1,LOC100130370,MIR4740
SE_02_052800064 chr17_GL000205v2_random:86178-90081 3903 64 4 0 0 0 0 0 MGC70870
SE_02_052800073 chr18:77054371-77066142 11771 73 3 364 26 0 4 4 MBP
SE_02_052800023 chr19:12778271-12789765 11494 23 4 276 23 0 136 0 MIR5684,BEST2,RTBDN,ASNA1,HOOK2,RNASEH2A,PRDX2,JUNB,C19ORF43,MAST1
SE_02_052800011 chr19:13839093-13850956 11863 11 6 331 30 1 159 0 NANOS3,LOC284454,MIR23A,ZSWIM4,MIR27A,MIR24-2,MIR181D,MIR181C
SE_02_052800040 chr19:14374808-14383979 9171 40 4 257 13 1 36 167 ADGRE5,PKN1,DDX39A
SE_02_052800030 chr19:16138844-16149314 10470 30 3 338 17 1 6 419 HSH2D,FAM32A,AP1M1,RAB8A,CIB3
SE_02_052800032 chr19:18289793-18305440 15647 32 5 458 36 0 13 0 PDE4C,LSM4,JUND,PGPEP1,LOC729966,MIR3188,KIAA1683
SE_02_052800026 chr19:1852899-1858024 5125 26 6 154 20 0 42 564 KLF16,ATP8B3,REXO1,LOC100288123,ADAT3,MIR1909,SCAMP4,ABHD17A
SE_02_052800029 chr19:2083100-2090511 7411 29 4 246 9 0 2 108 MOB3A,IZUMO4,MKNK2
SE_02_052800053 chr19:33266835-33273935 7100 53 4 246 13 0 77 0 CEBPA-AS1,CEBPA,SLC7A10
SE_02_052800063 chr19:56314679-56322515 7836 63 3 223 13 0 2 168 ZNF542P
SE_02_052800041 chr19_KI270868v1_alt:1510-7185 5675 41 3 0 0 0 0 0 AZU1
SE_02_052800008 chr2:144507950-144517464 9514 8 10 193 0 0 252 466 ZEB2,ZEB2-AS1,LINC01412
SE_02_052800005 chr2:159612833-159635899 23066 5 9 540 65 1 148 219 BAZ2B,LOC643072
SE_02_052800047 chr2:199455796-199461005 5209 47 3 88 1 0 144 850 SATB2,SATB2-AS1
SE_02_052800013 chr2:43211035-43226403 15368 13 9 514 17 0 152 663 ZFP36L2,LINC01126
SE_02_052800015 chr2:66437292-66447239 9947 15 6 231 9 1 207 503 MEIS1-AS2,MEIS1,MEIS1-AS3
SE_02_052800054 chr20:53590637-53595262 4625 54 4 101 2 0 45 174 LOC101927770,ZNF217
SE_02_052800061 chr21:34883862-34887127 3265 61 4 82 0 0 37 117 RUNX1
SE_02_052800033 chr22:46069089-46074998 5909 33 8 147 6 0 36 0 PRR34,MIR3619,LINC00899,PRR34-AS1,MIRLET7BHG,MIRLET7A3,MIR4763,MIRLET7B
SE_02_052800037 chr3:152193912-152205239 11327 37 3 299 40 1 17 0 MBNL1
SE_02_052800035 chr3:17938663-17947403 8740 35 6 224 2 0 109 0 LOC339862
SE_02_052800045 chr3:17964412-17971869 7457 45 5 179 0 0 41 0 LOC339862
SE_02_052800031 chr3:185815570-185824107 8537 31 3 195 4 2 67 94 IGF2BP2,MIR548AQ
SE_02_052800060 chr3:49340860-49344826 3966 60 2 98 10 0 3 0 GPX1,USP4
SE_02_052800028 chr3:71577985-71582987 5002 28 2 103 0 0 115 133 FOXP1,MIR1284
SE_02_052800016 chr5:135027337-135038181 10844 16 7 277 25 2 121 952 C5ORF66,PITX1,C5ORF66-AS1
SE_02_052800057 chr5:32386340-32390411 4071 57 5 93 5 0 23 106 ZFR,MIR579
SE_02_052800042 chr5:371976-375079 3103 42 3 88 16 0 0 0 AHRR,EXOC3-AS1
SE_02_052800034 chr5:394464-402449 7985 34 5 278 30 0 31 0 AHRR,EXOC3-AS1,EXOC3
SE_02_052800012 chr5:50432337-50443412 11075 12 7 310 23 0 21 179 EMB
SE_02_052800001 chr5:50634554-50679944 45390 1 24 1207 117 0 139 292 PARP8
SE_02_052800021 chr6:135181574-135192091 10517 21 5 208 7 3 97 184 MYB,MIR548A2
SE_02_052800043 chr6:45422550-45425511 2961 43 3 85 11 1 32 137 RUNX2,SUPT3H
SE_02_052800065 chr6:7109926-7114998 5072 65 3 139 1 0 52 0 RREB1
SE_02_052800036 chr7:38251959-38256967 5008 36 6 193 48 0 2 114 TARP
SE_02_052800027 chr7:38269472-38276686 7214 27 7 213 30 1 3 123 TARP
SE_02_052800014 chr7:38303283-38318205 14922 14 14 488 72 12 8 319 TRG-AS1,TARP
SE_02_052800022 chr8:129544625-129549552 4927 22 5 137 0 0 8 0 CCDC26
SE_02_052800044 chr9:78014244-78027735 13491 44 4 393 18 1 42 0 GNAQ
SE_02_052800018 chrUn_KI270467v1:2866-3420 554 18 1 0 0 0 0 0

SE annotation visualization


Information description of sample and annotation

Case ID: Name:GSM2860629
Input ID: Name:GSM2860638
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