Variant report

Variant	rs10829065
Chromosome Location	chr10:27074330-27074331
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	FOS	chr10:27073564-27074402	MCF10A-Er-Src	breast:	n/a	n/a
2	STAT3	chr10:27073527-27074383	MCF10A-Er-Src	breast:	n/a	chr10:27074124-27074135
3	CTCF	chr10:27074220-27074370	SAEC	small airway:	n/a	n/a
4	TCF7L2	chr10:27073899-27074386	MCF-7	breast:	n/a	n/a
5	FOS	chr10:27073547-27074397	MCF10A-Er-Src	breast:	n/a	n/a
6	POLR2A	chr10:27074229-27074491	K562	blood:	n/a	n/a
7	GATA3	chr10:27074031-27074635	MCF-7	breast:	n/a	n/a
8	CEBPB	chr10:27073858-27074371	MCF-7	breast:	n/a	chr10:27074099-27074110
9	FOS	chr10:27073559-27074383	MCF10A-Er-Src	breast:	n/a	n/a
10	STAT3	chr10:27073520-27074365	MCF10A-Er-Src	breast:	n/a	chr10:27074124-27074135
11	MYC	chr10:27073926-27074383	MCF10A-Er-Src	breast:	n/a	n/a
12	FOS	chr10:27073828-27074386	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:27073078..27074935-chr10:27148333..27150643,2	K562	blood:
2	chr10:27074239..27077172-chr10:27148340..27151224,5	MCF-7	breast:
3	chr10:27067079..27070597-chr10:27072640..27074844,4	K562	blood:
4	chr10:27066132..27067920-chr10:27074183..27076184,2	K562	blood:
5	chr10:27074245..27076242-chr10:27078041..27079548,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000223027	TF binding region
ENSG00000136754	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10764644	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10764645	1.00[ASN][1000 genomes]
rs10764654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10829076	0.96[ASN][1000 genomes]
rs10829086	1.00[CEU][hapmap]
rs10829099	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10829103	0.91[ASN][1000 genomes]
rs10829115	0.88[ASN][1000 genomes]
rs11015260	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11015261	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015272	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11015279	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11015280	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11015284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11015286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11015289	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11015291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11015305	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015309	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015321	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015322	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015349	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12243481	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12256219	0.96[ASN][1000 genomes]
rs12356134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12357198	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17754347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3758440	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4463751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7078094	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7094688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72629732	0.88[AMR][1000 genomes]
rs7914180	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7923125	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9299834	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv6132	chr10:27066081-27075522	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27044800-27082000	Weak transcription	Fetal Lung	lung
2	chr10:27051400-27082000	Weak transcription	Fetal Stomach	stomach
3	chr10:27058000-27079200	Weak transcription	Dnd41	blood
4	chr10:27066200-27074600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr10:27066400-27074600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr10:27066400-27075200	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr10:27068400-27079400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr10:27069200-27078800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr10:27069400-27079600	Weak transcription	K562	blood
10	chr10:27069800-27075000	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr10:27069800-27084600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr10:27070200-27076600	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:27070600-27074400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:27070600-27082800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr10:27070800-27091800	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:27071000-27075000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr10:27071000-27075000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr10:27071000-27080600	Weak transcription	Fetal Intestine Large	intestine
19	chr10:27071000-27080800	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr10:27071000-27082000	Weak transcription	Fetal Brain Male	brain
21	chr10:27071000-27083800	Weak transcription	Fetal Intestine Small	intestine
22	chr10:27071000-27084600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr10:27071200-27074600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:27071200-27074600	Weak transcription	Left Ventricle	heart
25	chr10:27071200-27075000	Enhancers	NHEK	skin
26	chr10:27071200-27075600	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr10:27071200-27075600	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr10:27071200-27078000	Weak transcription	Psoas Muscle	Psoas
29	chr10:27071200-27078200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr10:27071200-27079400	Weak transcription	HSMM	muscle
31	chr10:27071200-27079400	Weak transcription	Osteobl	bone
32	chr10:27071200-27079800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr10:27071200-27080800	Weak transcription	Brain Angular Gyrus	brain
34	chr10:27071200-27082000	Weak transcription	A549	lung
35	chr10:27071200-27089000	Weak transcription	Lung	lung
36	chr10:27071200-27089600	Weak transcription	Spleen	Spleen
37	chr10:27071400-27074600	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr10:27071400-27079200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:27071400-27080800	Weak transcription	Liver	Liver
40	chr10:27071400-27088600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr10:27072000-27074600	Weak transcription	GM12878-XiMat	blood
42	chr10:27072000-27081800	Weak transcription	NH-A	brain
43	chr10:27072200-27080200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr10:27072400-27076400	Strong transcription	Primary B cells from cord blood	blood
45	chr10:27072600-27074800	Enhancers	HMEC	breast
46	chr10:27073000-27074400	Enhancers	Skeletal Muscle Female	skeletal muscle
47	chr10:27073000-27074800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr10:27073000-27079400	Weak transcription	Small Intestine	intestine
49	chr10:27073000-27081000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr10:27073000-27087000	Weak transcription	Thymus	Thymus

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