Variant report

Variant	rs16935609
Chromosome Location	chr11:18651168-18651169
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:18646819..18652740-chr11:18653363..18657405,11	K562	blood:
2	chr11:18635938..18638203-chr11:18650353..18652187,2	MCF-7	breast:
3	chr11:18609428..18611724-chr11:18650512..18653393,2	MCF-7	breast:
4	chr11:18649875..18652802-chr11:18653746..18657273,3	MCF-7	breast:
5	chr11:18647229..18652774-chr11:18654335..18657734,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151116	Chromatin interaction
ENSG00000179119	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12790143	0.83[ASN][1000 genomes]
rs16935602	0.85[AMR][1000 genomes]
rs2121385	0.83[ASN][1000 genomes]
rs2658558	0.83[ASN][1000 genomes]
rs34242612	0.83[ASN][1000 genomes]
rs56811637	0.83[ASN][1000 genomes]
rs58804032	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58838170	0.85[AMR][1000 genomes]
rs58988307	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61208217	0.83[ASN][1000 genomes]
rs61424905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61752314	0.83[ASN][1000 genomes]
rs7106180	1.00[CEU][hapmap];0.83[ASN][1000 genomes]
rs7110125	0.85[AMR][1000 genomes]
rs7110470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73422545	0.83[ASN][1000 genomes]
rs73422599	0.83[ASN][1000 genomes]
rs73422601	0.83[ASN][1000 genomes]
rs73424410	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73424413	0.83[ASN][1000 genomes]
rs73424436	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424437	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424439	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424452	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424463	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424468	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424475	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7926511	0.83[ASN][1000 genomes]
rs7936497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7936520	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7938645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7942526	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947669	0.93[AFR][1000 genomes]
rs7951729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs872872	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs872873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[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	nsv949248	chr11:17791822-18692687	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv553633	chr11:18311701-19058451	Weak transcription Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv1042155	chr11:18435855-18697576	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
4	nsv1046886	chr11:18547568-18781448	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
5	nsv540956	chr11:18547568-18781448	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:18629000-18654400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:18630800-18654800	Weak transcription	Psoas Muscle	Psoas
3	chr11:18637000-18655200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:18637400-18654400	Weak transcription	Brain Angular Gyrus	brain
5	chr11:18637400-18654400	Weak transcription	Fetal Intestine Small	intestine
6	chr11:18637400-18654800	Weak transcription	Esophagus	oesophagus
7	chr11:18637400-18654800	Weak transcription	Lung	lung
8	chr11:18637400-18654800	Weak transcription	Pancreas	Pancrea
9	chr11:18637600-18654000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr11:18637600-18654200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr11:18637600-18654200	Weak transcription	Hela-S3	cervix
12	chr11:18637600-18654400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr11:18637600-18654400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr11:18637600-18654400	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr11:18637600-18654800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr11:18637600-18654800	Weak transcription	Right Ventricle	heart
17	chr11:18637600-18654800	Weak transcription	Spleen	Spleen
18	chr11:18637800-18654800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr11:18637800-18654800	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr11:18637800-18654800	Weak transcription	Stomach Smooth Muscle	stomach
21	chr11:18638000-18654400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:18638000-18654400	Weak transcription	Fetal Intestine Large	intestine
23	chr11:18638000-18654600	Weak transcription	Brain Substantia Nigra	brain
24	chr11:18638200-18654800	Weak transcription	Brain Cingulate Gyrus	brain
25	chr11:18638400-18654400	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr11:18638400-18654400	Weak transcription	K562	blood
27	chr11:18638400-18654800	Weak transcription	Fetal Muscle Trunk	muscle
28	chr11:18640200-18654600	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr11:18640400-18654200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:18640400-18654200	Weak transcription	Brain Hippocampus Middle	brain
31	chr11:18640400-18654400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr11:18640400-18654400	Weak transcription	HepG2	liver
33	chr11:18640400-18654800	Weak transcription	Aorta	Aorta
34	chr11:18640600-18654200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr11:18640600-18654200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr11:18640600-18654400	Weak transcription	A549	lung
37	chr11:18640600-18654400	Weak transcription	NH-A	brain
38	chr11:18640600-18654600	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr11:18640600-18654800	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr11:18640600-18654800	Weak transcription	Thymus	Thymus
41	chr11:18640800-18654200	Weak transcription	NHEK	skin
42	chr11:18640800-18654800	Weak transcription	HSMM	muscle
43	chr11:18641000-18654200	Weak transcription	Liver	Liver
44	chr11:18641000-18654200	Weak transcription	Osteobl	bone
45	chr11:18641000-18654400	Weak transcription	Fetal Lung	lung
46	chr11:18641000-18654400	Weak transcription	Rectal Smooth Muscle	rectum
47	chr11:18641000-18654800	Weak transcription	Small Intestine	intestine
48	chr11:18641000-18654800	Weak transcription	Stomach Mucosa	stomach
49	chr11:18641200-18654800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr11:18641400-18654200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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