Variant report

Variant	rs1878559
Chromosome Location	chr15:92611864-92611865
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92611564..92613241-chr15:92617063..92619542,2	MCF-7	breast:
2	chr15:92524405..92526013-chr15:92611226..92613057,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12900191	0.84[ASN][1000 genomes]
rs12903305	1.00[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap];0.91[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12910142	0.91[CEU][hapmap];0.90[TSI][hapmap];0.92[EUR][1000 genomes]
rs12915368	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17644604	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17644691	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17695712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1878558	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34044069	0.92[EUR][1000 genomes]
rs34153958	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34555786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34650528	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34970645	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34970707	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35319070	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35329561	0.92[EUR][1000 genomes]
rs35884194	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62008574	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62008600	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62008601	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62008602	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62008603	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62008606	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62008609	0.92[EUR][1000 genomes]
rs7173864	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs871370	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2757614	chr15:92581551-92615246	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv2760056	chr15:92581551-92615246	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1668	chr15:92585344-92635991	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region	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	chr15:92593200-92612600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr15:92605800-92612000	Weak transcription	Spleen	Spleen
3	chr15:92605800-92612400	Weak transcription	Ovary	ovary
4	chr15:92606400-92612600	Weak transcription	Aorta	Aorta
5	chr15:92606800-92612000	Weak transcription	Fetal Heart	heart
6	chr15:92609800-92616000	Enhancers	Brain Cingulate Gyrus	brain
7	chr15:92610000-92613000	Enhancers	Right Atrium	heart
8	chr15:92610400-92613000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:92610400-92613800	Enhancers	Brain Hippocampus Middle	brain
10	chr15:92610400-92614200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr15:92610600-92612000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr15:92610600-92612000	Weak transcription	Esophagus	oesophagus
13	chr15:92610600-92612000	Weak transcription	Lung	lung
14	chr15:92610600-92613200	Enhancers	Brain Angular Gyrus	brain
15	chr15:92610800-92612600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:92610800-92612600	Enhancers	Adipose Nuclei	Adipose
17	chr15:92610800-92612800	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr15:92610800-92613000	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr15:92610800-92613000	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr15:92610800-92615400	Enhancers	Brain Inferior Temporal Lobe	brain
21	chr15:92610800-92620400	Enhancers	Brain Substantia Nigra	brain
22	chr15:92611000-92612200	Enhancers	Fetal Brain Male	brain
23	chr15:92611000-92612400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr15:92611000-92612800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr15:92611000-92612800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr15:92611000-92613600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr15:92611000-92615200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr15:92611200-92612000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr15:92611200-92612600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr15:92611200-92613200	Enhancers	Primary hematopoietic stem cells	blood
31	chr15:92611200-92613200	Enhancers	Brain Anterior Caudate	brain
32	chr15:92611200-92613600	Enhancers	Primary T helper naive cells from peripheral blood	blood
33	chr15:92611200-92614800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr15:92611200-92615200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
35	chr15:92611400-92612400	Weak transcription	Right Ventricle	heart
36	chr15:92611400-92612400	Enhancers	GM12878-XiMat	blood
37	chr15:92611400-92612600	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr15:92611400-92612800	Weak transcription	Small Intestine	intestine
39	chr15:92611400-92612800	Enhancers	NH-A	brain
40	chr15:92611400-92613600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr15:92611400-92613800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr15:92611600-92612600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr15:92611600-92612600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr15:92611600-92612600	Enhancers	A549	lung
45	chr15:92611600-92612800	Enhancers	HSMM	muscle
46	chr15:92611600-92612800	Enhancers	Osteobl	bone
47	chr15:92611600-92613000	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr15:92611600-92613000	Enhancers	HSMMtube	muscle
49	chr15:92611600-92614000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
50	chr15:92611800-92612200	Enhancers	Fetal Brain Female	brain

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