Variant report

Variant	rs9920182
Chromosome Location	chr15:43202550-43202551
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:43201553..43203286-chr15:43204467..43206953,2	K562	blood:
2	chr15:43201061..43205182-chr15:43207494..43209457,4	K562	blood:

Extended variants
information (count: 72 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10518779	1.00[CEU][hapmap];0.84[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs12898255	0.80[AMR][1000 genomes]
rs12905385	0.87[ASW][hapmap]
rs12917018	0.94[JPT][hapmap];0.93[MEX][hapmap]
rs12917189	0.94[JPT][hapmap]
rs16957091	0.88[JPT][hapmap];0.86[MEX][hapmap]
rs16957168	0.94[ASW][hapmap];0.95[CEU][hapmap];0.92[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs16957422	0.94[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.84[MEX][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap]
rs1995939	0.94[JPT][hapmap];0.85[MEX][hapmap]
rs2280048	0.94[JPT][hapmap]
rs2305084	0.85[MEX][hapmap]
rs2412741	0.81[JPT][hapmap]
rs2412748	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28374998	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28494835	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28609797	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28613047	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28620320	0.84[EUR][1000 genomes]
rs28633493	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28796057	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28810091	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28871732	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3199486	0.94[JPT][hapmap];0.86[MEX][hapmap]
rs35838915	0.81[AMR][1000 genomes]
rs3742987	0.94[JPT][hapmap];0.85[MEX][hapmap]
rs3742988	0.94[JPT][hapmap]
rs3759792	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4274403	0.85[AMR][1000 genomes]
rs4924699	0.85[CEU][hapmap]
rs4924705	0.88[ASW][hapmap];1.00[CEU][hapmap];0.80[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.84[MEX][hapmap];0.86[MKK][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap]
rs4994112	0.81[JPT][hapmap]
rs66947001	0.91[EUR][1000 genomes]
rs7166705	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7166775	0.86[CEU][hapmap];0.94[JPT][hapmap];0.85[MEX][hapmap]
rs7167392	0.92[MEX][hapmap];0.85[MKK][hapmap]
rs7169009	0.94[JPT][hapmap];0.93[MEX][hapmap]
rs7170376	0.85[AMR][1000 genomes]
rs7174041	0.94[JPT][hapmap]
rs7175582	0.95[CEU][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs7176957	0.94[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7178248	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7181859	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7182141	0.94[ASW][hapmap];0.95[CEU][hapmap];0.92[MEX][hapmap]
rs7182650	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs731984	0.81[JPT][hapmap]
rs8026233	0.94[JPT][hapmap]
rs8027427	0.94[JPT][hapmap]
rs8028785	0.88[ASW][hapmap];1.00[CEU][hapmap];0.89[GIH][hapmap];0.92[MEX][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8034447	0.81[JPT][hapmap]
rs8036674	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8037022	0.80[YRI][hapmap]
rs8037613	0.85[CEU][hapmap]
rs8041432	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs9269	0.94[ASW][hapmap];0.84[CEU][hapmap];0.85[MEX][hapmap]
rs9919994	0.92[MEX][hapmap]
rs9920061	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9920202	1.00[CEU][hapmap];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427959	chr15:42931181-43207353	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1050128	chr15:43056145-43262736	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv542368	chr15:43056145-43262736	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv525461	chr15:43062548-43482127	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv904134	chr15:43097652-43357406	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1044522	chr15:43115348-43658417	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv515876	chr15:43116906-43445305	Strong transcription Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv904135	chr15:43143998-43392075	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1036512	chr15:43164906-43274531	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv3408090	chr15:43172709-43207571	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	esv3366604	chr15:43172709-43210677	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	esv3408604	chr15:43175709-43207571	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	nsv569239	chr15:43201109-43392075	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
14	nsv569240	chr15:43201109-43445305	Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
15	nsv569241	chr15:43201109-43522922	Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9920182	MAP1A	cis	parietal	SCAN
rs9920182	CDAN1	cis	parietal	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:43182800-43207000	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr15:43183200-43211600	Weak transcription	Left Ventricle	heart
3	chr15:43183800-43207200	Weak transcription	Ovary	ovary
4	chr15:43184200-43203400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr15:43184200-43207400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:43185600-43207000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:43187000-43207600	Weak transcription	Primary B cells from cord blood	blood
8	chr15:43187000-43211600	Weak transcription	Fetal Muscle Leg	muscle
9	chr15:43187200-43210600	Weak transcription	Primary T cells from cord blood	blood
10	chr15:43187400-43206600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr15:43189200-43211600	Weak transcription	Fetal Intestine Small	intestine
12	chr15:43196000-43211600	Weak transcription	Small Intestine	intestine
13	chr15:43196200-43205400	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr15:43196200-43206200	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr15:43196200-43207000	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr15:43196200-43211400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr15:43196400-43203000	Weak transcription	Psoas Muscle	Psoas
18	chr15:43196400-43203400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr15:43196400-43207000	Weak transcription	Brain Hippocampus Middle	brain
20	chr15:43196400-43207400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr15:43196400-43211600	Weak transcription	Right Atrium	heart
22	chr15:43196400-43211600	Weak transcription	Right Ventricle	heart
23	chr15:43196600-43211800	Weak transcription	Fetal Stomach	stomach
24	chr15:43201000-43211600	Weak transcription	Aorta	Aorta
25	chr15:43201600-43203400	Weak transcription	HMEC	breast
26	chr15:43201600-43207400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr15:43201600-43210400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr15:43201800-43207200	Weak transcription	K562	blood
29	chr15:43201800-43210400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr15:43201800-43210400	Weak transcription	NHEK	skin
31	chr15:43202200-43204200	Enhancers	Fetal Heart	heart
32	chr15:43202200-43207000	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr15:43202200-43211600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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