Variant report

Variant	rs10094541
Chromosome Location	chr8:19235381-19235382
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10095504	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11989637	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12335103	1.00[CHD][hapmap];0.83[GIH][hapmap];0.86[LWK][hapmap];0.83[YRI][hapmap]
rs12335343	0.81[CEU][hapmap];0.87[YRI][hapmap]
rs1320326	1.00[CHD][hapmap];0.86[MEX][hapmap]
rs13259019	0.82[EUR][1000 genomes]
rs13263385	0.85[AFR][1000 genomes]
rs13272084	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13281971	1.00[CHD][hapmap];0.88[GIH][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs17387732	0.81[CEU][hapmap];0.87[YRI][hapmap]
rs35026357	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35312266	0.87[EUR][1000 genomes]
rs71510648	0.89[EUR][1000 genomes]
rs7357426	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026466	chr8:18433493-19271274	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv539520	chr8:18433493-19271274	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1015395	chr8:18489538-19370258	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv429907	chr8:18578720-19398220	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv890610	chr8:18749120-19260599	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv949745	chr8:18826830-19363963	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv1016482	chr8:18834807-19339487	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv890614	chr8:18838764-19274793	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv533109	chr8:18845845-19456780	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
10	nsv1016993	chr8:18855623-19311731	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
11	nsv949636	chr8:18957705-19664732	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer 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	18 gene(s)	inside rSNPs	diseases
12	nsv1033229	chr8:19081684-19271274	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
13	nsv948861	chr8:19199688-19609029	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
14	nsv949304	chr8:19199688-19625912	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
15	nsv890622	chr8:19224772-19275354	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
16	nsv610751	chr8:19226335-19284889	Transcr. at gene 5' and 3' Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10094541	NPM2	cis	parietal	SCAN
rs10094541	FLJ14107	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:19173600-19254800	Weak transcription	Colonic Mucosa	Colon
2	chr8:19214400-19266200	Weak transcription	Aorta	Aorta
3	chr8:19215400-19245800	Weak transcription	Left Ventricle	heart
4	chr8:19215400-19247800	Weak transcription	Fetal Kidney	kidney
5	chr8:19216600-19243800	Weak transcription	Pancreas	Pancrea
6	chr8:19221600-19243800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr8:19221800-19242600	Weak transcription	HMEC	breast
8	chr8:19221800-19242600	Weak transcription	NHEK	skin
9	chr8:19222000-19243000	Weak transcription	Stomach Mucosa	stomach
10	chr8:19227200-19239800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr8:19227600-19246400	Weak transcription	Fetal Heart	heart
12	chr8:19229600-19237200	Strong transcription	A549	lung
13	chr8:19229600-19242200	Strong transcription	Liver	Liver
14	chr8:19230000-19248400	Weak transcription	Spleen	Spleen
15	chr8:19230000-19248600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr8:19230200-19239400	Weak transcription	Fetal Lung	lung
17	chr8:19230200-19240200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr8:19230200-19243200	Weak transcription	Fetal Muscle Leg	muscle
19	chr8:19230600-19240000	Weak transcription	Primary B cells from cord blood	blood
20	chr8:19230800-19235800	Strong transcription	Osteobl	bone
21	chr8:19230800-19236800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr8:19231000-19241200	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr8:19231200-19237200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr8:19231400-19243000	Weak transcription	Primary hematopoietic stem cells	blood
25	chr8:19231600-19243400	Weak transcription	Brain Hippocampus Middle	brain
26	chr8:19232400-19237000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr8:19232400-19241600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr8:19232400-19244600	Weak transcription	Stomach Smooth Muscle	stomach
29	chr8:19232600-19243600	Weak transcription	Placenta	Placenta
30	chr8:19233000-19237600	Strong transcription	Fetal Intestine Small	intestine
31	chr8:19233200-19236200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr8:19233400-19266200	Weak transcription	Brain Anterior Caudate	brain
33	chr8:19233600-19238400	Weak transcription	Hela-S3	cervix
34	chr8:19233800-19241600	Weak transcription	HepG2	liver
35	chr8:19233800-19241800	Weak transcription	Adipose Nuclei	Adipose
36	chr8:19233800-19242800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr8:19233800-19243000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr8:19233800-19243000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr8:19233800-19243000	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr8:19233800-19243800	Weak transcription	Esophagus	oesophagus
41	chr8:19234000-19236000	Weak transcription	Ovary	ovary
42	chr8:19234000-19243200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr8:19234000-19243600	Weak transcription	Fetal Intestine Large	intestine
44	chr8:19234000-19245000	Weak transcription	Gastric	stomach
45	chr8:19234000-19248800	Weak transcription	Lung	lung
46	chr8:19234000-19251600	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr8:19234200-19236200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr8:19234200-19243000	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr8:19234400-19236800	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr8:19234400-19237000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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