Variant report

Variant	rs11188699
Chromosome Location	chr10:98053562-98053563
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97988968..97989965-chr10:98052754..98053801,25	MCF-7	breast:
2	chr10:97776596..97777595-chr10:98052760..98053742,4	K562	blood:
3	chr10:97776929..97777676-chr10:98052758..98053580,3	MCF-7	breast:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DNTT-1	chr10:98053537-98054000	ENSG00000229418.1
2	lnc-BLNK-3	chr10:98052442-98054005	NONHSAT015809
3	lnc-BLNK-3	chr10:98052442-98054005	ENSG00000229418.2

No data

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10509707	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882768	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188710	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs11188731	1.00[CEU][hapmap]
rs12242936	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs12250473	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12257639	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12411820	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12414495	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12414529	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12569756	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs12570008	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs12572610	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12573362	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs17111536	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17111540	1.00[CEU][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17111736	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs1902704	0.86[CHD][hapmap];0.87[GIH][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs2069238	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2146385	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[ASN][1000 genomes]
rs2146391	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2273892	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs2861306	0.85[JPT][hapmap]
rs3762093	0.83[AMR][1000 genomes]
rs3789933	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3789939	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes]
rs3789940	0.87[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap]
rs41291614	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4917730	0.87[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4919000	0.86[CHD][hapmap];0.86[JPT][hapmap]
rs57519557	0.94[AMR][1000 genomes]
rs6584061	0.86[JPT][hapmap]
rs6584064	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs67425977	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7069190	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7072251	0.87[CHB][hapmap];0.93[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.91[ASN][1000 genomes]
rs7074775	0.82[AMR][1000 genomes]
rs7078316	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7083595	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7091809	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72637514	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72637515	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72637516	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72640001	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs734225	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs734226	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap]
rs7896766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7905402	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7919557	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7919588	0.91[ASN][1000 genomes]
rs7919799	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7922788	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs941998	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs941999	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv2761620	chr10:98047045-98089749	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98048400-98053600	Enhancers	Primary B cells from peripheral blood	blood
2	chr10:98048600-98058800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr10:98050600-98059200	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr10:98051000-98053600	Enhancers	Primary B cells from cord blood	blood
5	chr10:98051600-98053800	Enhancers	GM12878-XiMat	blood
6	chr10:98052400-98054800	Enhancers	Dnd41	blood
7	chr10:98052400-98055600	Enhancers	Fetal Thymus	thymus
8	chr10:98052800-98053600	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr10:98052800-98053600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr10:98052800-98053600	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr10:98052800-98058400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr10:98053000-98053600	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr10:98053000-98053600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr10:98053000-98053600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr10:98053200-98053600	Flanking Active TSS	Adipose Nuclei	Adipose
16	chr10:98053200-98054200	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr10:98053200-98055200	Enhancers	Thymus	Thymus
18	chr10:98053200-98059200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr10:98053400-98053600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr10:98053400-98053600	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr10:98053400-98053600	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr10:98053400-98053600	Enhancers	Liver	Liver
23	chr10:98053400-98053600	Enhancers	Duodenum Mucosa	Duodenum
24	chr10:98053400-98053600	Flanking Active TSS	HepG2	liver
25	chr10:98053400-98054000	Enhancers	iPS-20b Cell Line	embryonic stem cell

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