Variant report

Variant	rs11006970
Chromosome Location	chr10:28552168-28552169
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28543012..28546500-chr10:28550223..28554148,7	MCF-7	breast:
2	chr10:28550629..28558294-chr10:28588558..28593348,8	MCF-7	breast:
3	chr10:28537244..28539673-chr10:28551271..28553158,2	MCF-7	breast:
4	chr10:28551828..28553630-chr10:28580648..28583187,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10763647	0.81[JPT][hapmap]
rs10763654	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10763655	0.91[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs10763658	0.85[ASN][1000 genomes]
rs10826425	0.95[JPT][hapmap]
rs10826433	0.86[ASN][1000 genomes]
rs10826435	0.95[CHB][hapmap];0.91[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MEX][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.87[ASN][1000 genomes]
rs10826436	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10826449	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs11006917	0.81[JPT][hapmap]
rs11006946	0.87[ASN][1000 genomes]
rs11006947	0.92[AFR][1000 genomes]
rs11006950	0.83[CHB][hapmap];0.87[JPT][hapmap];0.92[AFR][1000 genomes]
rs11006956	0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11006957	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11006959	0.93[ASN][1000 genomes]
rs11006962	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11006965	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs1148175	0.91[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs1418757	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1418759	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs17758855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1870097	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MEX][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs1870098	0.91[CHB][hapmap];0.83[CHD][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.81[MEX][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs1953322	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1953324	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2085471	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2100615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2100616	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2124955	0.82[CHB][hapmap]
rs2290701	0.81[ASN][1000 genomes]
rs2607540	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs3847388	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs61845911	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6481515	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7072480	0.86[ASN][1000 genomes]
rs7088465	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7905490	0.83[GIH][hapmap]
rs7913970	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9919516	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28537400-28552600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:28537600-28552600	Weak transcription	Primary T cells from cord blood	blood
3	chr10:28542400-28552400	Weak transcription	Psoas Muscle	Psoas
4	chr10:28544000-28552200	Weak transcription	Fetal Heart	heart
5	chr10:28544000-28555600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr10:28544200-28552400	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr10:28544200-28554600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr10:28546200-28552400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:28549600-28552600	Weak transcription	Right Ventricle	heart
10	chr10:28550000-28552200	Enhancers	HepG2	liver
11	chr10:28550400-28552200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr10:28550400-28553600	Weak transcription	Primary B cells from cord blood	blood
13	chr10:28550400-28555600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr10:28550400-28582600	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr10:28550600-28552200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:28550600-28562400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr10:28550600-28562600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr10:28550600-28563600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr10:28550800-28555600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr10:28550800-28555600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr10:28551000-28552200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr10:28551400-28552200	Enhancers	Colon Smooth Muscle	Colon
23	chr10:28551400-28553000	Enhancers	Stomach Mucosa	stomach
24	chr10:28551400-28563600	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr10:28551600-28552400	Enhancers	Fetal Intestine Small	intestine
26	chr10:28551600-28553400	Weak transcription	Primary B cells from peripheral blood	blood
27	chr10:28551600-28553400	Enhancers	Pancreas	Pancrea
28	chr10:28551800-28552800	Enhancers	Aorta	Aorta
29	chr10:28551800-28553000	Flanking Active TSS	Stomach Smooth Muscle	stomach
30	chr10:28552000-28552400	Enhancers	Liver	Liver
31	chr10:28552000-28553000	Enhancers	Fetal Stomach	stomach

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