Variant report

Variant	rs10508564
Chromosome Location	chr10:18954586-18954587
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	chr10:18946565..18950911-chr10:18951359..18956154,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152487	Chromatin interaction
ENSG00000165997	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10466095	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs11014651	0.86[YRI][hapmap]
rs11014769	1.00[YRI][hapmap]
rs11014986	0.93[YRI][hapmap]
rs11014994	0.86[AFR][1000 genomes]
rs11015019	0.89[AFR][1000 genomes]
rs11015036	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs11015184	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs11015254	0.94[YRI][hapmap];0.83[AMR][1000 genomes]
rs11015323	0.88[YRI][hapmap];0.83[AMR][1000 genomes]
rs11015443	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12243188	0.94[YRI][hapmap]
rs12246317	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12246433	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12247548	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12247869	1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12249604	1.00[YRI][hapmap]
rs12250601	0.90[AFR][1000 genomes]
rs12255014	0.84[AFR][1000 genomes]
rs12258306	0.90[AFR][1000 genomes]
rs12258688	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12267659	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12269605	0.93[AFR][1000 genomes]
rs16917423	0.86[YRI][hapmap]
rs16917589	1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs16917615	0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs16917628	1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17363677	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs28794621	1.00[AMR][1000 genomes]
rs4614337	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs7088674	1.00[AMR][1000 genomes]
rs7100918	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv466762	chr10:18932172-18976659	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv550121	chr10:18932172-18976659	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18949400-18973200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:18949600-18957000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr10:18949600-18972000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr10:18949800-18956600	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr10:18950000-18956600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:18950000-18957600	Weak transcription	Fetal Stomach	stomach
7	chr10:18950200-18954600	Weak transcription	HSMM	muscle
8	chr10:18950200-18956000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:18950200-18956800	Weak transcription	Left Ventricle	heart
10	chr10:18950200-18957000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr10:18950200-18957000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr10:18950200-18957600	Weak transcription	Placenta	Placenta
13	chr10:18950400-18957000	Weak transcription	Adipose Nuclei	Adipose
14	chr10:18950800-18955600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr10:18950800-18956000	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr10:18950800-18956000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr10:18950800-18956000	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr10:18950800-18962400	Weak transcription	Fetal Kidney	kidney
19	chr10:18951000-18954600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr10:18951000-18954600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr10:18951000-18954600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr10:18951000-18956000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:18951000-18956600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr10:18951000-18956600	Weak transcription	Brain Germinal Matrix	brain
25	chr10:18951000-18957000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr10:18951000-18957400	Weak transcription	Primary B cells from peripheral blood	blood
27	chr10:18951000-18961800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:18951000-18962400	Weak transcription	Fetal Lung	lung
29	chr10:18951000-18965800	Weak transcription	Colonic Mucosa	Colon
30	chr10:18951000-18966600	Weak transcription	Rectal Smooth Muscle	rectum
31	chr10:18951000-18967400	Weak transcription	Esophagus	oesophagus
32	chr10:18951000-18971800	Weak transcription	Spleen	Spleen
33	chr10:18951000-18976400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr10:18951200-18954600	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr10:18951200-18954600	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr10:18951200-18954600	Weak transcription	HUVEC	blood vessel
37	chr10:18951200-18954600	Weak transcription	NHEK	skin
38	chr10:18951200-18954800	Weak transcription	HMEC	breast
39	chr10:18951200-18955800	Weak transcription	Fetal Thymus	thymus
40	chr10:18951200-18956000	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr10:18951200-18956000	Weak transcription	Primary hematopoietic stem cells	blood
42	chr10:18951200-18956600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr10:18951200-18956800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr10:18951200-18957200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr10:18951200-18957600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr10:18951200-18964400	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr10:18951400-18955800	Weak transcription	Primary T cells from cord blood	blood
48	chr10:18951400-18956000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr10:18951400-18957600	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr10:18951400-18957800	Weak transcription	Colon Smooth Muscle	Colon

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