Variant report

Variant	rs950732
Chromosome Location	chr10:94114633-94114634
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	chr10:94113172..94116160-chr10:94117822..94119572,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10748577	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10748578	0.80[EUR][1000 genomes]
rs10748579	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10748580	0.83[EUR][1000 genomes]
rs10786029	0.90[CHB][hapmap];0.90[CHD][hapmap];0.91[JPT][hapmap]
rs10786037	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882028	0.85[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap]
rs10882034	0.84[LWK][hapmap]
rs10882042	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11186872	0.84[LWK][hapmap]
rs11186914	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap]
rs11186915	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs2254667	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2255718	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2265195	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs2488793	0.82[EUR][1000 genomes]
rs2771248	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs2771256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2798254	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3781229	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs3824734	0.96[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap]
rs4933227	0.85[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap]
rs4933228	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4933720	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs4999831	0.83[EUR][1000 genomes]
rs7078559	0.85[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap]
rs7087501	0.82[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap]
rs7090737	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs7091853	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7920520	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs913649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs9804247	0.82[LWK][hapmap]
rs9943333	0.83[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs950732	RNLS	cis	cerebellum	SCAN
rs950732	RNLS	cis	parietal	SCAN
rs950732	TNKS2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94090600-94114800	Weak transcription	Small Intestine	intestine
2	chr10:94105800-94115400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:94110000-94115800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr10:94110200-94115800	Weak transcription	Fetal Kidney	kidney
5	chr10:94110200-94115800	Weak transcription	HSMMtube	muscle
6	chr10:94110600-94115000	Weak transcription	Lung	lung
7	chr10:94110600-94115200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr10:94110600-94115800	Weak transcription	Pancreas	Pancrea
9	chr10:94110600-94116000	Weak transcription	Fetal Muscle Leg	muscle
10	chr10:94110600-94116200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr10:94110800-94115000	Weak transcription	Brain Germinal Matrix	brain
12	chr10:94110800-94116000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:94111000-94116000	Weak transcription	Primary B cells from cord blood	blood
14	chr10:94111200-94115200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr10:94111200-94115800	Weak transcription	Right Ventricle	heart
16	chr10:94111200-94116000	Weak transcription	Primary T cells from cord blood	blood
17	chr10:94111200-94116000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr10:94111200-94116200	Weak transcription	Dnd41	blood
19	chr10:94111400-94114800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr10:94111400-94115600	Weak transcription	Osteobl	bone
21	chr10:94111400-94116000	Weak transcription	Fetal Brain Male	brain
22	chr10:94111400-94116200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr10:94111400-94116600	Weak transcription	HSMM	muscle
24	chr10:94111800-94115600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr10:94112000-94114800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr10:94112000-94114800	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr10:94112000-94115000	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr10:94112000-94115400	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr10:94112000-94115400	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr10:94112000-94115600	Weak transcription	Fetal Thymus	thymus
31	chr10:94112000-94116600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr10:94112200-94116200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr10:94112200-94116200	Weak transcription	A549	lung
34	chr10:94112400-94115200	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr10:94112400-94115200	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr10:94112400-94115200	Enhancers	iPS-15b Cell Line	embryonic stem cell
37	chr10:94112400-94117200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr10:94112600-94115000	Enhancers	HUES6 Cell Line	embryonic stem cell
39	chr10:94113000-94115000	Weak transcription	HUVEC	blood vessel
40	chr10:94113400-94115200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr10:94113400-94115600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr10:94113400-94116800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr10:94113800-94114800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr10:94114000-94114800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
45	chr10:94114000-94115000	Enhancers	ES-I3 Cell Line	embryonic stem cell
46	chr10:94114000-94115200	Enhancers	H1 Cell Line	embryonic stem cell
47	chr10:94114200-94114800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr10:94114400-94114800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr10:94114600-94115000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
50	chr10:94114600-94115600	Weak transcription	H9 Cell Line	embryonic stem cell

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