Variant report

Variant	rs829232
Chromosome Location	chr10:95750827-95750828
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr10:95750788-95752085	T-47D	breast:	n/a	chr10:95751987-95751996 chr10:95751988-95751997
2	FOXA1	chr10:95750805-95751186	T-47D	breast:	n/a	n/a
3	GATA3	chr10:95750722-95751197	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:95735923..95738579-chr10:95750156..95752956,2	MCF-7	breast:

Variant related genes	Relation type
PLCE1	TF binding region

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1096044	0.88[ASN][1000 genomes]
rs1223580	0.94[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.81[TSI][hapmap];0.93[ASN][1000 genomes]
rs1223583	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1223584	0.81[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs1223585	0.81[CHB][hapmap];0.83[CHD][hapmap];0.84[GIH][hapmap];0.88[JPT][hapmap];0.80[TSI][hapmap];0.89[ASN][1000 genomes]
rs1223586	0.94[ASN][1000 genomes]
rs1223587	0.93[ASN][1000 genomes]
rs1223588	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1223590	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1223612	0.81[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs1223613	0.94[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.93[ASN][1000 genomes]
rs1223614	0.80[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs1223615	0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs1223616	0.81[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs1223617	0.81[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs1223618	0.94[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[ASN][1000 genomes]
rs1425300	0.85[ASN][1000 genomes]
rs1648001	0.81[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs1776842	0.94[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[ASN][1000 genomes]
rs1776865	0.81[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs1935959	0.91[ASN][1000 genomes]
rs1954345	0.85[ASN][1000 genomes]
rs1954346	0.85[ASN][1000 genomes]
rs2433027	0.83[ASN][1000 genomes]
rs2911857	0.86[EUR][1000 genomes]
rs2911858	0.87[ASN][1000 genomes]
rs4359134	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7068499	0.81[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs829226	0.89[ASN][1000 genomes]
rs829228	0.94[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.95[ASN][1000 genomes]
rs829229	0.81[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];0.81[TSI][hapmap];0.88[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	nsv1038218	chr10:95728508-95751499	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs829232	ANKRD2	cis	parietal	SCAN
rs829232	CYP2C9	cis	parietal	SCAN

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95750000-95753200	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr10:95750400-95751000	Enhancers	Lung	lung
3	chr10:95750400-95751200	Enhancers	Pancreas	Pancrea
4	chr10:95750400-95751400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr10:95750400-95751600	Enhancers	Fetal Muscle Leg	muscle
6	chr10:95750400-95753000	Enhancers	Brain Germinal Matrix	brain
7	chr10:95750400-95753000	Enhancers	Fetal Stomach	stomach
8	chr10:95750400-95753000	Enhancers	Stomach Mucosa	stomach
9	chr10:95750400-95753200	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr10:95750600-95751000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr10:95750600-95751000	Bivalent Enhancer	Brain Anterior Caudate	brain
12	chr10:95750600-95751000	Enhancers	Fetal Brain Male	brain
13	chr10:95750600-95751000	Flanking Active TSS	Fetal Lung	lung
14	chr10:95750600-95751000	Enhancers	Sigmoid Colon	Sigmoid Colon
15	chr10:95750600-95751400	Enhancers	NH-A	brain
16	chr10:95750600-95751600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr10:95750600-95751600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:95750600-95751600	Enhancers	HSMM	muscle
19	chr10:95750600-95752000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr10:95750600-95752000	Enhancers	Hela-S3	cervix
21	chr10:95750600-95752000	Enhancers	HSMMtube	muscle
22	chr10:95750600-95752400	Enhancers	HepG2	liver
23	chr10:95750600-95752600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:95750600-95752800	Enhancers	Fetal Brain Female	brain
25	chr10:95750600-95753000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr10:95750600-95753000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr10:95750600-95753000	Enhancers	Fetal Heart	heart
28	chr10:95750600-95753200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr10:95750600-95753200	Enhancers	Fetal Intestine Small	intestine
30	chr10:95750800-95751000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr10:95750800-95751000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr10:95750800-95751000	Enhancers	Colonic Mucosa	Colon
33	chr10:95750800-95751000	Enhancers	Gastric	stomach
34	chr10:95750800-95751200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr10:95750800-95751200	Enhancers	Aorta	Aorta
36	chr10:95750800-95751200	Bivalent Enhancer	Small Intestine	intestine
37	chr10:95750800-95751400	Enhancers	Muscle Satellite Cultured Cells	--
38	chr10:95750800-95751400	Enhancers	Osteobl	bone
39	chr10:95750800-95751600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr10:95750800-95751600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr10:95750800-95751600	Enhancers	Right Ventricle	heart
42	chr10:95750800-95751600	Enhancers	NHLF	lung
43	chr10:95750800-95751800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr10:95750800-95752000	Bivalent Enhancer	Brain Cingulate Gyrus	brain
45	chr10:95750800-95752000	Flanking Active TSS	A549	lung
46	chr10:95750800-95752400	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
47	chr10:95750800-95752400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr10:95750800-95752600	Enhancers	Duodenum Mucosa	Duodenum
49	chr10:95750800-95752600	Enhancers	Stomach Smooth Muscle	stomach
50	chr10:95750800-95752800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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