Variant report

Variant	rs10882437
Chromosome Location	chr10:96121830-96121831
allele	C/T
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	POLR2A	chr10:96121803-96123047	PBDE	blood:	n/a	n/a
2	STAT3	chr10:96121782-96122427	MCF10A-Er-Src	breast:	n/a	chr10:96122145-96122154 chr10:96122339-96122347
3	HCFC1	chr10:96121687-96123418	Hela-S3	cervix:	n/a	n/a
4	USF2	chr10:96121806-96122037	GM12878	blood:	n/a	n/a
5	POLR2A	chr10:96121763-96123162	GM12891	blood:	n/a	n/a
6	MXI1	chr10:96121674-96123248	IMR90	lung:	n/a	n/a
7	MXI1	chr10:96120771-96123397	SK-N-SH	brain:	n/a	n/a
8	POLR2A	chr10:96121722-96123015	HepG2	liver:	n/a	n/a
9	POLR2A	chr10:96121645-96123008	GM12878	blood:	n/a	n/a
10	POLR2A	chr10:96121740-96123120	GM12878	blood:	n/a	n/a
11	FOS	chr10:96121741-96122944	MCF10A-Er-Src	breast:	n/a	chr10:96122149-96122161 chr10:96122145-96122154 chr10:96122145-96122155 chr10:96122145-96122155 chr10:96122222-96122231 chr10:96122145-96122155 chr10:96122144-96122156 chr10:96122144-96122155 chr10:96122145-96122155
12	RCOR1	chr10:96121713-96122050	GM12878	blood:	n/a	n/a
13	MAZ	chr10:96121760-96121958	GM12878	blood:	n/a	n/a
14	POLR2A	chr10:96121597-96122952	IMR90	lung:	n/a	n/a
15	FOS	chr10:96121762-96122451	MCF10A-Er-Src	breast:	n/a	chr10:96122149-96122161 chr10:96122145-96122154 chr10:96122145-96122155 chr10:96122145-96122155 chr10:96122222-96122231 chr10:96122145-96122155 chr10:96122144-96122156 chr10:96122144-96122155 chr10:96122145-96122155
16	POLR2A	chr10:96121160-96123221	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:96120934..96124258-chr10:96160439..96165957,6	MCF-7	breast:
2	chr10:96121306..96124383-chr10:96159927..96163798,5	MCF-7	breast:
3	chr10:96120995..96123181-chr10:96304440..96307322,3	MCF-7	breast:
4	chr10:96121730..96122942-chr10:96161863..96162614,3	Hela-S3	cervix:
5	chr10:96121005..96123981-chr10:96160609..96162843,2	K562	blood:

Variant related genes	Relation type
NOC3L	TF binding region
ENSG00000108239	Chromatin interaction
ENSG00000119969	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10509670	0.82[CEU][hapmap];0.91[GIH][hapmap];0.93[MEX][hapmap]
rs10509671	0.93[MEX][hapmap]
rs10786161	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10882416	0.94[ASW][hapmap];0.95[CEU][hapmap];0.94[GIH][hapmap];0.82[LWK][hapmap];0.87[MKK][hapmap];0.90[TSI][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10882422	0.94[ASW][hapmap];0.83[CEU][hapmap];0.91[GIH][hapmap];0.93[MEX][hapmap];0.81[TSI][hapmap];0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs10882424	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.95[TSI][hapmap];0.83[YRI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10882430	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10882435	0.81[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10882436	0.81[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10882442	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs10882443	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11187850	0.83[CEU][hapmap];0.91[GIH][hapmap];0.93[MEX][hapmap]
rs11187853	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11187869	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11187876	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11187881	1.00[CEU][hapmap];0.86[YRI][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11187893	0.81[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11187894	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11187899	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11187900	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11187901	1.00[ASW][hapmap];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];1.00[TSI][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11558740	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12217597	0.82[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12219063	0.86[EUR][1000 genomes]
rs12220125	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12263737	0.88[ASW][hapmap];0.95[CEU][hapmap];0.94[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.87[MKK][hapmap];0.90[TSI][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12773229	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12780491	0.81[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12781451	0.81[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2274223	0.82[ASW][hapmap];0.83[CEU][hapmap];0.83[GIH][hapmap];0.93[MEX][hapmap];0.83[AMR][1000 genomes]
rs34689035	0.82[AMR][1000 genomes]
rs3765524	0.88[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.87[MKK][hapmap];0.90[TSI][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3781264	0.93[MEX][hapmap]
rs3781265	0.82[CEU][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes]
rs3818432	1.00[CEU][hapmap];0.94[GIH][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.90[EUR][1000 genomes]
rs6583934	0.84[AMR][1000 genomes]
rs6583935	0.80[CEU][hapmap];0.89[AMR][1000 genomes]
rs6583937	1.00[CEU][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6583940	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7074125	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7077192	0.84[EUR][1000 genomes]
rs7081265	0.93[MEX][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes]
rs7084339	0.88[ASW][hapmap];0.82[CEU][hapmap];0.91[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.87[MKK][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes]
rs7084988	1.00[CEU][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7085378	1.00[CEU][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7092226	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.93[MEX][hapmap];0.94[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7094783	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7096037	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7099485	0.82[CEU][hapmap];0.96[YRI][hapmap];0.88[AMR][1000 genomes]
rs7100430	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7100870	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7897678	0.83[AMR][1000 genomes]
rs7897963	0.84[AMR][1000 genomes]
rs7903902	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7908638	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7914672	0.81[AMR][1000 genomes];0.80[EUR][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	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10882437	NOC3L	cis	parietal	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96085000-96122200	Weak transcription	Gastric	stomach
2	chr10:96110400-96122000	Weak transcription	Pancreas	Pancrea
3	chr10:96113400-96122000	Weak transcription	Esophagus	oesophagus
4	chr10:96118800-96122000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:96119200-96122000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:96119200-96122200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:96121000-96122000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:96121000-96122000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:96121000-96122000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
10	chr10:96121000-96122000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
11	chr10:96121000-96122000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
12	chr10:96121000-96122000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:96121000-96122000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr10:96121000-96122000	Enhancers	Sigmoid Colon	Sigmoid Colon
15	chr10:96121000-96122000	Enhancers	Stomach Mucosa	stomach
16	chr10:96121000-96122000	Flanking Active TSS	Dnd41	blood
17	chr10:96121000-96122200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:96121000-96122200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
19	chr10:96121000-96122200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr10:96121000-96122200	Flanking Active TSS	Fetal Heart	heart
21	chr10:96121000-96122200	Flanking Active TSS	HUVEC	blood vessel
22	chr10:96121000-96122400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
23	chr10:96121000-96122400	Flanking Active TSS	Liver	Liver
24	chr10:96121000-96122400	Flanking Active TSS	Duodenum Mucosa	Duodenum
25	chr10:96121000-96122600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr10:96121000-96122600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
27	chr10:96121000-96123200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr10:96121200-96122000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr10:96121200-96122000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
30	chr10:96121200-96122000	Flanking Active TSS	Osteobl	bone
31	chr10:96121200-96122200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
32	chr10:96121200-96122200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
33	chr10:96121200-96122200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
34	chr10:96121200-96122200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
35	chr10:96121200-96122200	Flanking Active TSS	HSMMtube	muscle
36	chr10:96121200-96122400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
37	chr10:96121200-96122400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
38	chr10:96121200-96122600	Flanking Active TSS	Adipose Nuclei	Adipose
39	chr10:96121200-96123000	Active TSS	H9 Cell Line	embryonic stem cell
40	chr10:96121200-96123000	Active TSS	iPS-15b Cell Line	embryonic stem cell
41	chr10:96121200-96123000	Active TSS	GM12878-XiMat	blood
42	chr10:96121200-96123000	Active TSS	NHLF	lung
43	chr10:96121200-96123200	Active TSS	Breast Myoepithelial Primary Cells	Breast
44	chr10:96121200-96123200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr10:96121200-96123200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr10:96121200-96123200	Active TSS	Psoas Muscle	Psoas
47	chr10:96121400-96122000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
48	chr10:96121400-96122000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
49	chr10:96121400-96122000	Enhancers	Primary monocytes fromperipheralblood	blood
50	chr10:96121400-96122000	Enhancers	Primary neutrophils fromperipheralblood	blood

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