Variant report

Variant	rs1774971
Chromosome Location	chr10:90142815-90142816
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	chr10:90141255..90143410-chr10:90143614..90146289,3	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1067840	0.83[YRI][hapmap]
rs10788600	0.82[YRI][hapmap]
rs10887807	0.84[ASN][1000 genomes]
rs11202705	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs11202722	0.95[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs11202726	0.95[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs11202731	0.91[ASN][1000 genomes]
rs11202734	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11598623	0.87[ASN][1000 genomes]
rs12217988	1.00[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12219831	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12220632	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12221213	0.95[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs12569922	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12572813	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs1426617	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs1582223	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1582224	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1613409	0.92[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1648512	1.00[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs1648523	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17111200	0.95[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs1774970	0.92[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2241515	0.95[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs3740279	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs3781201	0.95[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs55749454	0.84[ASN][1000 genomes]
rs57949777	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59184458	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59482232	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61260851	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7073755	0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7075138	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7097606	1.00[CEU][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74149704	0.87[ASN][1000 genomes]
rs74149712	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74149714	0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74149715	0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs752709	0.87[ASN][1000 genomes]
rs792208	0.83[YRI][hapmap]
rs792224	0.83[ASN][1000 genomes]
rs792225	1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs792227	0.89[ASN][1000 genomes]
rs792228	0.92[ASN][1000 genomes]
rs792229	0.84[ASN][1000 genomes]
rs792232	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs792234	0.92[YRI][hapmap]
rs796945	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs880793	0.82[ASN][1000 genomes]
rs880794	0.95[CHB][hapmap];0.88[JPT][hapmap];0.82[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	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90135800-90144800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr10:90139800-90144000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr10:90139800-90144200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr10:90139800-90144200	Weak transcription	Fetal Thymus	thymus
5	chr10:90139800-90144600	Weak transcription	Small Intestine	intestine
6	chr10:90139800-90144600	Weak transcription	Thymus	Thymus
7	chr10:90139800-90144800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:90139800-90144800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr10:90139800-90145200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr10:90139800-90145200	Weak transcription	NHDF-Ad	bronchial
11	chr10:90139800-90146400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr10:90140000-90143200	Weak transcription	Fetal Intestine Large	intestine
13	chr10:90140000-90143200	Weak transcription	Fetal Intestine Small	intestine
14	chr10:90140000-90144600	Weak transcription	A549	lung
15	chr10:90140000-90144600	Weak transcription	HMEC	breast
16	chr10:90140000-90145400	Weak transcription	Osteobl	bone
17	chr10:90141800-90143800	ZNF genes & repeats	Dnd41	blood
18	chr10:90141800-90145200	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr10:90142400-90143400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:90142400-90145400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr10:90142600-90143600	ZNF genes & repeats	GM12878-XiMat	blood
22	chr10:90142600-90145200	Enhancers	Primary T cells from cord blood	blood
23	chr10:90142600-90145400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr10:90142800-90143200	Weak transcription	Liver	Liver
25	chr10:90142800-90145200	Enhancers	Primary neutrophils fromperipheralblood	blood
26	chr10:90142800-90145200	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr10:90142800-90145400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr10:90142800-90145400	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr10:90142800-90145400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
30	chr10:90142800-90145400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
31	chr10:90142800-90145400	Enhancers	Primary T killer memory cells from peripheral blood	blood

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