Variant report

Variant	rs2771256
Chromosome Location	chr10:94113708-94113709
allele	A/C
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: 31 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10748577	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10748578	0.81[EUR][1000 genomes]
rs10748579	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes];0.80[ASN][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];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882028	1.00[ASW][hapmap];0.84[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs10882042	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11186914	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11186915	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs2254667	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2255718	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2265195	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs2488793	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2771248	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[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]
rs2798254	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs3781229	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs3824734	1.00[ASW][hapmap];0.96[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs4933227	1.00[ASW][hapmap];0.85[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap]
rs4933228	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4933720	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]
rs4999831	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7078559	1.00[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs7087501	1.00[ASW][hapmap];0.81[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs7090737	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7091853	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7920520	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs913649	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs950732	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9943333	0.83[EUR][1000 genomes];0.80[ASN][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
rs2771256	RNLS	cis	parietal	SCAN
rs2771256	RNLS	cis	cerebellum	SCAN
rs2771256	TNKS2	cis	parietal	SCAN

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94052400-94114600	Weak transcription	Colonic Mucosa	Colon
2	chr10:94089000-94114600	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr10:94089800-94114000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr10:94090600-94114800	Weak transcription	Small Intestine	intestine
5	chr10:94091200-94114000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr10:94103400-94113800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr10:94105800-94115400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:94109800-94114600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr10:94110000-94114600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr10:94110000-94115800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr10:94110200-94115800	Weak transcription	Fetal Kidney	kidney
12	chr10:94110200-94115800	Weak transcription	HSMMtube	muscle
13	chr10:94110600-94114000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr10:94110600-94114400	Weak transcription	Fetal Stomach	stomach
15	chr10:94110600-94114600	Weak transcription	Fetal Intestine Small	intestine
16	chr10:94110600-94115000	Weak transcription	Lung	lung
17	chr10:94110600-94115200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr10:94110600-94115800	Weak transcription	Pancreas	Pancrea
19	chr10:94110600-94116000	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:94110600-94116200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr10:94110800-94115000	Weak transcription	Brain Germinal Matrix	brain
22	chr10:94110800-94116000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr10:94111000-94114600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr10:94111000-94116000	Weak transcription	Primary B cells from cord blood	blood
25	chr10:94111200-94113800	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr10:94111200-94114400	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr10:94111200-94114400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr10:94111200-94114600	Weak transcription	Brain Anterior Caudate	brain
29	chr10:94111200-94115200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr10:94111200-94115800	Weak transcription	Right Ventricle	heart
31	chr10:94111200-94116000	Weak transcription	Primary T cells from cord blood	blood
32	chr10:94111200-94116000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr10:94111200-94116200	Weak transcription	Dnd41	blood
34	chr10:94111400-94113800	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr10:94111400-94114000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr10:94111400-94114400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr10:94111400-94114600	Weak transcription	Liver	Liver
38	chr10:94111400-94114800	Weak transcription	Primary hematopoietic stem cells	blood
39	chr10:94111400-94115600	Weak transcription	Osteobl	bone
40	chr10:94111400-94116000	Weak transcription	Fetal Brain Male	brain
41	chr10:94111400-94116200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr10:94111400-94116600	Weak transcription	HSMM	muscle
43	chr10:94111600-94114600	Weak transcription	NHEK	skin
44	chr10:94111800-94115600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr10:94112000-94113800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr10:94112000-94113800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr10:94112000-94114000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr10:94112000-94114400	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr10:94112000-94114600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr10:94112000-94114600	Weak transcription	Left Ventricle	heart

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