Variant report

Variant	rs11856468
Chromosome Location	chr15:77896786-77896787
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77862030..77863568-chr15:77895689..77897664,2	MCF-7	breast:
2	chr15:77890507..77893828-chr15:77894009..77899298,4	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11072658	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11857746	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12438314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12591110	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12594829	0.90[EUR][1000 genomes]
rs12906211	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs16968985	0.90[EUR][1000 genomes]
rs2667758	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2667759	0.83[EUR][1000 genomes]
rs2667760	0.81[EUR][1000 genomes]
rs2667761	0.82[EUR][1000 genomes]
rs2667762	0.81[EUR][1000 genomes]
rs2667763	0.81[EUR][1000 genomes]
rs2667766	0.80[EUR][1000 genomes]
rs2667784	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2682904	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2682905	0.84[EUR][1000 genomes]
rs2682906	0.81[EUR][1000 genomes]
rs2682907	0.81[EUR][1000 genomes]
rs2682908	0.82[EUR][1000 genomes]
rs2682909	0.81[EUR][1000 genomes]
rs2682911	0.80[EUR][1000 genomes]
rs2682912	0.80[EUR][1000 genomes]
rs2682928	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28641836	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3743481	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55722502	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs55745559	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55808627	0.89[EUR][1000 genomes]
rs55978935	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56182742	0.90[EUR][1000 genomes]
rs56188061	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56292208	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs56381229	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58102377	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58600827	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59235404	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59391831	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60440781	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61240175	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7179753	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033468	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8034247	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8037691	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs867908	0.80[EUR][1000 genomes]
rs867917	0.82[EUR][1000 genomes]
rs867918	0.82[EUR][1000 genomes]
rs884141	0.82[EUR][1000 genomes]
rs907389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9806723	0.85[EUR][1000 genomes]
rs9806734	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1036749	chr15:77884026-77912408	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77891000-77898800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr15:77892200-77897200	Weak transcription	Gastric	stomach
3	chr15:77892200-77897600	Weak transcription	Right Ventricle	heart
4	chr15:77892400-77896800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:77892400-77896800	Weak transcription	Lung	lung
6	chr15:77892400-77897000	Weak transcription	Right Atrium	heart
7	chr15:77892800-77897000	Weak transcription	Fetal Thymus	thymus
8	chr15:77892800-77897200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr15:77893000-77896800	Weak transcription	Stomach Smooth Muscle	stomach
10	chr15:77893200-77897200	Weak transcription	K562	blood
11	chr15:77895000-77898600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr15:77895800-77897000	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr15:77895800-77897000	Enhancers	Brain Anterior Caudate	brain
14	chr15:77895800-77899800	Enhancers	Fetal Heart	heart
15	chr15:77895800-77901200	Enhancers	Fetal Muscle Leg	muscle
16	chr15:77896000-77897000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:77896000-77897000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr15:77896000-77897000	Enhancers	Brain Cingulate Gyrus	brain
19	chr15:77896000-77897000	Enhancers	Brain Hippocampus Middle	brain
20	chr15:77896000-77897000	Enhancers	Brain Inferior Temporal Lobe	brain
21	chr15:77896000-77897200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr15:77896000-77897200	Enhancers	Fetal Brain Male	brain
23	chr15:77896200-77897000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:77896200-77897000	Enhancers	Brain Angular Gyrus	brain
25	chr15:77896200-77897800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr15:77896200-77897800	Enhancers	Fetal Lung	lung
27	chr15:77896200-77898000	Enhancers	Fetal Stomach	stomach
28	chr15:77896200-77900400	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr15:77896200-77900600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr15:77896400-77897200	Enhancers	Fetal Kidney	kidney
31	chr15:77896400-77897400	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr15:77896400-77897400	Enhancers	Placenta	Placenta
33	chr15:77896400-77898800	Weak transcription	Left Ventricle	heart
34	chr15:77896400-77900200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr15:77896600-77896800	Active TSS	HUES6 Cell Line	embryonic stem cell
36	chr15:77896600-77896800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
37	chr15:77896600-77896800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr15:77896600-77896800	Enhancers	Brain Germinal Matrix	brain
39	chr15:77896600-77896800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
40	chr15:77896600-77897000	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:77896600-77897000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr15:77896600-77897000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr15:77896600-77897000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr15:77896600-77897200	Active TSS	H9 Cell Line	embryonic stem cell
45	chr15:77896600-77897200	Active TSS	HUES48 Cell Line	embryonic stem cell
46	chr15:77896600-77897200	Active TSS	iPS-15b Cell Line	embryonic stem cell
47	chr15:77896600-77897200	Active TSS	iPS-18 Cell Line	embryonic stem cell
48	chr15:77896600-77897200	Active TSS	iPS-20b Cell Line	embryonic stem cell
49	chr15:77896600-77897200	Active TSS	Brain Substantia Nigra	brain
50	chr15:77896600-77897200	ZNF genes & repeats	Spleen	Spleen

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