Variant report

Variant	rs10516726
Chromosome Location	chr4:85640424-85640425
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	chr4:85638824..85641748-chr4:85648162..85650961,3	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10516728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10516733	0.92[EUR][1000 genomes]
rs11724870	0.97[ASN][1000 genomes]
rs11726635	0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.88[ASN][1000 genomes]
rs11728145	0.97[ASN][1000 genomes]
rs11730031	0.88[ASN][1000 genomes]
rs11730137	0.88[ASN][1000 genomes]
rs11931033	1.00[JPT][hapmap]
rs11936391	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11936719	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11939300	0.87[ASW][hapmap];1.00[YRI][hapmap]
rs11940030	0.88[ASN][1000 genomes]
rs11947757	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[EUR][1000 genomes]
rs1463607	0.88[ASN][1000 genomes]
rs1473456	0.88[ASN][1000 genomes]
rs1484662	0.85[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.88[ASN][1000 genomes]
rs1601286	0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.88[ASN][1000 genomes]
rs16995917	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17009212	0.88[ASN][1000 genomes]
rs17009218	0.88[ASN][1000 genomes]
rs17009245	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[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];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17009286	0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.88[ASN][1000 genomes]
rs1838038	0.85[YRI][hapmap]
rs1994227	0.88[ASN][1000 genomes]
rs2015631	1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2289594	0.84[EUR][1000 genomes]
rs3747681	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4544703	0.92[EUR][1000 genomes]
rs58642676	0.84[EUR][1000 genomes]
rs7681742	0.88[ASN][1000 genomes]
rs7692204	0.82[EUR][1000 genomes]
rs894533	1.00[JPT][hapmap];0.88[ASN][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	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv532738	chr4:85590841-85777997	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv527581	chr4:85637635-85640591	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85587800-85648400	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr4:85603800-85643800	Weak transcription	Stomach Mucosa	stomach
3	chr4:85604400-85674800	Weak transcription	Small Intestine	intestine
4	chr4:85613400-85643000	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr4:85613400-85646200	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr4:85613400-85646600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:85613400-85649400	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr4:85613600-85650200	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr4:85615000-85677600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr4:85616800-85646600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr4:85617000-85641800	Weak transcription	Psoas Muscle	Psoas
12	chr4:85619200-85726000	Weak transcription	Hela-S3	cervix
13	chr4:85619400-85646400	Strong transcription	Fetal Muscle Trunk	muscle
14	chr4:85619600-85646400	Strong transcription	Liver	Liver
15	chr4:85620200-85648000	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr4:85620800-85663400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr4:85625000-85646600	Strong transcription	Placenta	Placenta
18	chr4:85625200-85641600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr4:85626800-85641600	Weak transcription	NHEK	skin
20	chr4:85626800-85641800	Weak transcription	HMEC	breast
21	chr4:85627800-85646800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr4:85628800-85641600	Weak transcription	Aorta	Aorta
23	chr4:85628800-85641600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr4:85628800-85641600	Weak transcription	Spleen	Spleen
25	chr4:85628800-85642000	Weak transcription	Gastric	stomach
26	chr4:85629200-85662400	Weak transcription	Colonic Mucosa	Colon
27	chr4:85630000-85641200	Weak transcription	NHLF	lung
28	chr4:85630000-85641400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr4:85630000-85641600	Weak transcription	Pancreas	Pancrea
30	chr4:85630000-85641800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr4:85630000-85656400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr4:85630000-85659000	Weak transcription	Right Ventricle	heart
33	chr4:85630200-85641400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr4:85630200-85641600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr4:85630200-85656400	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr4:85630800-85645600	Weak transcription	Primary hematopoietic stem cells	blood
37	chr4:85631200-85641600	Weak transcription	Esophagus	oesophagus
38	chr4:85632400-85641200	Weak transcription	Brain Angular Gyrus	brain
39	chr4:85632600-85641600	Weak transcription	Brain Cingulate Gyrus	brain
40	chr4:85632600-85649000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr4:85632600-85658200	Weak transcription	A549	lung
42	chr4:85632800-85641600	Weak transcription	Brain Substantia Nigra	brain
43	chr4:85633400-85667800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr4:85633800-85641600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr4:85634600-85641800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr4:85634800-85641600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr4:85634800-85641800	Weak transcription	Colon Smooth Muscle	Colon
48	chr4:85635000-85640800	Weak transcription	Fetal Brain Male	brain
49	chr4:85635000-85642000	Weak transcription	NH-A	brain
50	chr4:85635400-85641600	Weak transcription	Sigmoid Colon	Sigmoid Colon

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