Variant report

Variant	rs10908454
Chromosome Location	chr1:155066416-155066417
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:155056491..155066482-chr1:155136760..155147519,21	K562	blood:
2	chr1:155064687..155066465-chr1:155098268..155100764,2	K562	blood:
3	chr1:155062448..155069217-chr1:155142816..155147773,12	MCF-7	breast:
4	chr1:155065702..155067995-chr1:155139570..155140962,16	MCF-7	breast:
5	chr1:155065499..155067791-chr1:155070241..155073223,2	MCF-7	breast:
6	chr1:155055416..155060440-chr1:155063419..155068026,8	K562	blood:
7	chr1:155064469..155067923-chr1:155161991..155164572,4	MCF-7	breast:
8	chr1:155063776..155066689-chr1:155134444..155136393,2	MCF-7	breast:
9	chr1:155066076..155068136-chr1:155139564..155141486,24	MCF-7	breast:
10	chr1:154931783..154934509-chr1:155065563..155068170,2	MCF-7	breast:
11	chr1:155063703..155067297-chr1:155143302..155147272,4	K562	blood:
12	chr1:155066341..155068339-chr1:155131182..155134101,2	MCF-7	breast:
13	chr1:155049589..155073019-chr1:155085330..155115362,149	MCF-7	breast:
14	chr1:155061878..155067935-chr1:155138836..155144212,15	MCF-7	breast:
15	chr1:155061833..155068204-chr1:155135824..155142287,19	MCF-7	breast:
16	chr1:155064648..155066932-chr1:155147928..155150182,2	K562	blood:
17	chr1:155062611..155066935-chr1:155144495..155147775,5	MCF-7	breast:
18	chr1:155064464..155066465-chr1:155098268..155100764,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163462	Chromatin interaction
ENSG00000143590	Chromatin interaction
ENSG00000169242	Chromatin interaction
ENSG00000169241	Chromatin interaction
ENSG00000271380	Chromatin interaction
ENSG00000163348	Chromatin interaction
ENSG00000202027	Chromatin interaction
ENSG00000185499	Chromatin interaction
ENSG00000163463	Chromatin interaction
ENSG00000179085	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1001848	1.00[JPT][hapmap]
rs10157801	0.85[JPT][hapmap]
rs10796938	1.00[ASN][1000 genomes]
rs10796939	0.90[ASN][1000 genomes]
rs10908455	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10908456	0.80[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[MKK][hapmap];0.81[TSI][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10908458	0.85[JPT][hapmap]
rs11264304	0.85[JPT][hapmap]
rs11264306	1.00[JPT][hapmap]
rs11264311	0.90[AMR][1000 genomes]
rs11264312	1.00[ASN][1000 genomes]
rs11264313	0.97[ASN][1000 genomes]
rs11264314	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11264319	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11264321	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11264322	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11264327	0.93[ASN][1000 genomes]
rs11264328	0.93[ASN][1000 genomes]
rs11264329	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12025371	0.85[JPT][hapmap]
rs12026113	0.97[ASN][1000 genomes]
rs12028043	0.85[JPT][hapmap]
rs12039316	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12040970	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12145362	0.87[ASW][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.84[MKK][hapmap];0.93[ASN][1000 genomes]
rs12904	0.85[JPT][hapmap]
rs1462855	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1870939	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2306124	0.87[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.91[MEX][hapmap];0.84[MKK][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35902694	0.85[JPT][hapmap]
rs3765087	1.00[JPT][hapmap]
rs3766916	1.00[JPT][hapmap]
rs3766918	1.00[ASN][1000 genomes]
rs3806256	0.85[JPT][hapmap]
rs4045192	0.85[JPT][hapmap]
rs4246529	0.85[JPT][hapmap]
rs4276913	0.85[JPT][hapmap]
rs4303067	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4361977	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4625273	1.00[ASN][1000 genomes]
rs4745	0.85[JPT][hapmap]
rs4845407	1.00[JPT][hapmap]
rs4845408	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4971052	1.00[JPT][hapmap]
rs4971066	0.85[JPT][hapmap]
rs4971073	0.85[JPT][hapmap]
rs4971076	0.85[JPT][hapmap]
rs4971079	0.85[JPT][hapmap]
rs56112907	1.00[ASN][1000 genomes]
rs6427158	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6665822	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6693477	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7364524	0.85[JPT][hapmap]
rs7364869	1.00[ASN][1000 genomes]
rs7365544	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7366138	0.95[ASN][1000 genomes]
rs7366355	1.00[ASN][1000 genomes]
rs7367207	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[MKK][hapmap];0.81[TSI][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7367758	0.97[ASN][1000 genomes]
rs7367897	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7368345	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7534162	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7548955	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9297	0.85[JPT][hapmap]
rs9330263	0.88[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	nsv532579	chr1:154548165-155262692	Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	575 gene(s)	inside rSNPs	diseases
2	nsv872454	chr1:154904840-155079477	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	181 gene(s)	inside rSNPs	diseases
3	esv1823746	chr1:154965207-155231904	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
4	nsv872455	chr1:155003954-155106550	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
5	esv2762194	chr1:155063145-155067283	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	Chromatin interactive region	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10908454	ADAM15	cis	multi-tissue	Pritchard

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155059200-155066600	Weak transcription	Primary B cells from cord blood	blood
2	chr1:155063400-155067200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
3	chr1:155063600-155067200	Enhancers	Right Ventricle	heart
4	chr1:155064200-155066600	Weak transcription	GM12878-XiMat	blood
5	chr1:155064400-155066600	Weak transcription	Stomach Mucosa	stomach
6	chr1:155064400-155066800	Weak transcription	Primary B cells from peripheral blood	blood
7	chr1:155064600-155066600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:155064600-155066600	Weak transcription	Pancreas	Pancrea
9	chr1:155064600-155067000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr1:155065200-155067400	Enhancers	Fetal Brain Male	brain
11	chr1:155065600-155067400	Enhancers	Fetal Lung	lung
12	chr1:155065600-155067600	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr1:155065800-155066600	Enhancers	Brain Anterior Caudate	brain
14	chr1:155065800-155066600	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr1:155065800-155066600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr1:155065800-155066600	Enhancers	Brain Substantia Nigra	brain
17	chr1:155065800-155066600	Bivalent Enhancer	Placenta	Placenta
18	chr1:155065800-155066600	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr1:155065800-155066800	Weak transcription	Spleen	Spleen
20	chr1:155065800-155067000	Enhancers	Ovary	ovary
21	chr1:155065800-155067200	Enhancers	Duodenum Mucosa	Duodenum
22	chr1:155065800-155067400	Enhancers	Fetal Muscle Leg	muscle
23	chr1:155065800-155067400	Enhancers	Fetal Stomach	stomach
24	chr1:155065800-155067800	Enhancers	Fetal Heart	heart
25	chr1:155066000-155066600	Enhancers	Brain Angular Gyrus	brain
26	chr1:155066000-155066600	Enhancers	Brain Cingulate Gyrus	brain
27	chr1:155066000-155066600	Enhancers	Colonic Mucosa	Colon
28	chr1:155066000-155066600	Enhancers	Rectal Mucosa Donor 29	rectum
29	chr1:155066000-155066800	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr1:155066000-155067000	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:155066000-155067000	Enhancers	Brain Germinal Matrix	brain
32	chr1:155066000-155067000	Enhancers	Lung	lung
33	chr1:155066000-155067000	Enhancers	Right Atrium	heart
34	chr1:155066000-155067200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr1:155066000-155067200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
36	chr1:155066000-155067400	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr1:155066000-155067600	Enhancers	Liver	Liver
38	chr1:155066200-155066600	Enhancers	Fetal Brain Female	brain
39	chr1:155066200-155066800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr1:155066200-155066800	Enhancers	NH-A	brain
41	chr1:155066200-155067000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr1:155066200-155067000	Enhancers	HUES64 Cell Line	embryonic stem cell
43	chr1:155066200-155067000	Flanking Active TSS	Colon Smooth Muscle	Colon
44	chr1:155066200-155067000	Enhancers	Esophagus	oesophagus
45	chr1:155066200-155067000	Enhancers	HSMMtube	muscle
46	chr1:155066200-155067200	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr1:155066200-155067200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr1:155066200-155067200	Enhancers	Adipose Nuclei	Adipose
49	chr1:155066200-155067200	Enhancers	Duodenum Smooth Muscle	Duodenum
50	chr1:155066200-155067200	Enhancers	Fetal Intestine Large	intestine

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