Variant report

Variant	rs151401
Chromosome Location	chr4:103190128-103190129
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs13150344	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs151390	1.00[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.91[ASN][1000 genomes]
rs151404	1.00[ASW][hapmap];0.95[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];0.94[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs151406	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs151407	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs151410	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs151411	0.89[EUR][1000 genomes]
rs151412	0.90[EUR][1000 genomes]
rs151415	0.81[EUR][1000 genomes]
rs151421	0.82[EUR][1000 genomes]
rs170869	0.88[GIH][hapmap];0.88[TSI][hapmap];0.80[AMR][1000 genomes]
rs233806	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs233807	0.88[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs233810	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs233812	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs233813	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs233816	1.00[CHB][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs233823	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs233828	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs233830	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35166705	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs396902	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs440702	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs458870	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs460624	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs465164	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs621412	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs63519	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs651547	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs657985	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs659763	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs659812	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs680310	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869164	chr4:102483189-103213842	Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv428447	chr4:103103730-103262107	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1008680	chr4:103153709-103206555	Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1011868	chr4:103158581-103206555	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv999012	chr4:103162076-103206555	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1012254	chr4:103174196-103191787	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1014733	chr4:103174196-103206240	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1002129	chr4:103174196-103206555	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1013313	chr4:103175700-103206555	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1013439	chr4:103178743-103191787	Strong transcription Enhancers Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1003825	chr4:103179197-103206555	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv998689	chr4:103179788-103206555	Enhancers Weak transcription Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs151401	CENPE	cis	cerebellum	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103179200-103202200	Weak transcription	Lung	lung
2	chr4:103179400-103221000	Weak transcription	K562	blood
3	chr4:103180400-103200400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr4:103181400-103197600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr4:103181600-103210800	Weak transcription	Liver	Liver
6	chr4:103181800-103230400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr4:103182000-103255400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr4:103183400-103210600	Weak transcription	Primary B cells from cord blood	blood
9	chr4:103184000-103196600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:103184200-103220600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:103184400-103190200	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr4:103184600-103200400	Weak transcription	GM12878-XiMat	blood
13	chr4:103184600-103201000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr4:103186600-103195400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr4:103186600-103229600	Weak transcription	Pancreas	Pancrea
16	chr4:103186800-103216800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr4:103187200-103200400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr4:103187200-103229400	Weak transcription	Fetal Thymus	thymus
19	chr4:103188400-103192600	Weak transcription	Hela-S3	cervix
20	chr4:103188400-103194000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr4:103189000-103193000	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr4:103189000-103216800	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr4:103189200-103192200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr4:103189200-103192600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr4:103189200-103195800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr4:103189200-103197600	Weak transcription	Primary T cells from cord blood	blood
27	chr4:103189200-103211200	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr4:103189200-103225400	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr4:103189400-103218600	Weak transcription	Placenta	Placenta
30	chr4:103189600-103190200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr4:103189800-103200600	Weak transcription	Dnd41	blood
32	chr4:103189800-103232400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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