Variant report

Variant	rs2663041
Chromosome Location	chr10:50107537-50107538
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	chr10:50105441..50108221-chr10:50110037..50113154,4	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10745284	0.83[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10776650	0.83[ASN][1000 genomes]
rs10776651	0.87[ASN][1000 genomes]
rs10776652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10857650	1.00[JPT][hapmap]
rs11101517	1.00[JPT][hapmap]
rs11101533	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11101558	0.90[CHB][hapmap];0.89[CHD][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs11595341	0.88[ASN][1000 genomes]
rs17836494	0.89[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1904595	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1904596	0.82[CEU][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs1904600	0.87[ASN][1000 genomes]
rs1904604	0.83[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1904605	0.87[ASN][1000 genomes]
rs1913517	0.90[CHB][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs1993985	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2127586	0.87[ASN][1000 genomes]
rs2127592	0.83[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2170133	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2377653	0.94[ASN][1000 genomes]
rs2377654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2620878	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2620880	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2620881	0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2620882	0.85[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2620883	0.83[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2620884	0.87[ASN][1000 genomes]
rs2620885	0.87[ASN][1000 genomes]
rs2620887	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2620890	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2620893	0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2620894	0.87[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2620907	0.82[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2663019	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2663020	0.89[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs2663021	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2663029	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2663030	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2663033	0.87[ASN][1000 genomes]
rs2663034	0.88[ASN][1000 genomes]
rs2663038	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2663049	0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2663050	0.87[ASN][1000 genomes]
rs2663052	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2663054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2663055	0.85[EUR][1000 genomes]
rs2663069	0.87[ASN][1000 genomes]
rs2671692	0.84[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2671694	1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2671695	0.84[EUR][1000 genomes]
rs2671710	0.90[ASN][1000 genomes]
rs2671711	0.89[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2671712	0.89[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2889699	0.87[ASN][1000 genomes]
rs2928404	0.87[ASN][1000 genomes]
rs2940710	0.85[EUR][1000 genomes]
rs2940712	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2940728	0.88[ASN][1000 genomes]
rs2940729	0.87[ASN][1000 genomes]
rs2940730	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2943244	0.88[TSI][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]
rs2943245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2943255	0.89[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3747878	1.00[JPT][hapmap]
rs3860191	0.90[CHB][hapmap];0.91[CHD][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs4838657	0.88[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs6537581	0.83[ASN][1000 genomes]
rs6537582	0.83[ASN][1000 genomes]
rs6537583	0.90[ASN][1000 genomes]
rs7068839	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7069142	0.98[ASN][1000 genomes]
rs7078312	0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7086101	0.88[ASN][1000 genomes]
rs7086333	0.90[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs7088194	0.89[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7094610	0.82[CHD][hapmap]
rs7094742	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7097397	0.80[JPT][hapmap]
rs7098906	1.00[JPT][hapmap]
rs7900483	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7912174	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7913620	0.90[CHB][hapmap];0.91[CHD][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs7915025	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7916558	0.87[ASN][1000 genomes]
rs7922169	0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7923621	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv831865	chr10:49994254-50164239	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50072800-50126200	Strong transcription	Primary B cells from peripheral blood	blood
2	chr10:50074600-50129600	Strong transcription	Primary B cells from cord blood	blood
3	chr10:50075400-50126000	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr10:50088000-50109400	Weak transcription	Right Atrium	heart
5	chr10:50096600-50107800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr10:50098000-50110000	Strong transcription	Primary hematopoietic stem cells	blood
7	chr10:50098200-50110200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr10:50099600-50108400	Weak transcription	Adipose Nuclei	Adipose
9	chr10:50101600-50122800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr10:50103400-50108400	Weak transcription	Left Ventricle	heart
11	chr10:50104000-50115800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:50104800-50119200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:50105000-50109000	Weak transcription	Colonic Mucosa	Colon
14	chr10:50105200-50107800	Weak transcription	Fetal Muscle Leg	muscle
15	chr10:50105800-50110200	Strong transcription	GM12878-XiMat	blood
16	chr10:50106200-50108000	Weak transcription	Spleen	Spleen
17	chr10:50106200-50113600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr10:50106400-50107800	Weak transcription	Fetal Stomach	stomach
19	chr10:50106400-50107800	Weak transcription	Psoas Muscle	Psoas
20	chr10:50106800-50110200	Strong transcription	Primary T cells from cord blood	blood
21	chr10:50107000-50107800	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr10:50107000-50108000	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr10:50107000-50109000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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