Variant report

Variant	rs3781566
Chromosome Location	chr10:118648841-118648842
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:118646049..118649271-chr10:118762894..118765234,3	MCF-7	breast:
2	chr10:118647239..118651488-chr10:118651970..118654207,4	MCF-7	breast:
3	chr10:118647284..118650159-chr10:118653455..118655400,2	MCF-7	breast:
4	chr10:118637537..118640975-chr10:118647484..118651676,4	K562	blood:
5	chr10:118637996..118640960-chr10:118646617..118648984,2	K562	blood:
6	chr10:118607571..118610860-chr10:118647249..118651335,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188316	Chromatin interaction
ENSG00000225302	Chromatin interaction
ENSG00000187164	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10218905	1.00[ASW][hapmap];0.83[CEU][hapmap];0.95[LWK][hapmap];0.86[MEX][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs10510025	1.00[ASW][hapmap];0.83[CEU][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.85[MEX][hapmap];0.92[MKK][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10886016	1.00[ASW][hapmap];0.83[JPT][hapmap];0.95[LWK][hapmap];0.95[MEX][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes]
rs10886021	0.83[JPT][hapmap]
rs11197843	0.93[TSI][hapmap]
rs11197863	0.83[CEU][hapmap];0.83[JPT][hapmap]
rs1122688	1.00[ASW][hapmap];0.83[CEU][hapmap];0.95[LWK][hapmap];0.86[MEX][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes]
rs12769006	0.83[CEU][hapmap];0.83[JPT][hapmap]
rs1419832	0.81[MEX][hapmap]
rs1637572	0.81[JPT][hapmap]
rs1905538	0.83[CEU][hapmap];0.83[JPT][hapmap]
rs1905542	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1905544	0.83[JPT][hapmap];0.86[MEX][hapmap]
rs2101264	1.00[ASW][hapmap];0.83[CEU][hapmap];0.83[JPT][hapmap];0.98[LWK][hapmap];0.86[MEX][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs2118207	0.83[CEU][hapmap]
rs2420308	0.80[CEU][hapmap]
rs2531685	0.82[JPT][hapmap]
rs2531686	0.83[JPT][hapmap]
rs2627194	0.83[JPT][hapmap]
rs2627197	0.82[JPT][hapmap]
rs4092881	0.92[AFR][1000 genomes]
rs4638225	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6585422	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7077565	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7089699	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs740600	0.83[CEU][hapmap];0.83[JPT][hapmap];0.81[MEX][hapmap]
rs7901788	0.83[AFR][1000 genomes]
rs7903295	1.00[ASW][hapmap];0.83[CEU][hapmap];0.83[JPT][hapmap];0.98[LWK][hapmap];0.86[MEX][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs879255	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs3781566	DKFZp781N1041	cis	multi-tissue	Pritchard
rs3781566	KIAA1598	cis	Whole Blood	GTEx
rs3781566	KIAA1598	cis	multi-tissue	Pritchard
rs3781566	KCNK18	cis	parietal	SCAN

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:118637200-118658800	Weak transcription	Pancreas	Pancrea
2	chr10:118637600-118670400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:118639000-118666600	Weak transcription	Fetal Intestine Small	intestine
4	chr10:118640400-118649600	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr10:118640800-118651600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr10:118641000-118650600	Weak transcription	Adipose Nuclei	Adipose
7	chr10:118641800-118658800	Weak transcription	K562	blood
8	chr10:118641800-118665200	Weak transcription	HepG2	liver
9	chr10:118641800-118665400	Weak transcription	Fetal Brain Female	brain
10	chr10:118642200-118649200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr10:118642600-118652800	Weak transcription	Fetal Brain Male	brain
12	chr10:118642600-118670400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:118643000-118650200	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr10:118643400-118650800	Weak transcription	Aorta	Aorta
15	chr10:118643600-118649800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:118643800-118651000	Weak transcription	Brain Anterior Caudate	brain
17	chr10:118645400-118649000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr10:118645400-118673200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr10:118645800-118649000	Enhancers	Fetal Muscle Leg	muscle
20	chr10:118646400-118649600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr10:118646400-118652400	Weak transcription	Fetal Kidney	kidney
22	chr10:118646600-118649200	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr10:118646800-118649000	Genic enhancers	Brain Cingulate Gyrus	brain
24	chr10:118646800-118652800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr10:118647000-118649200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr10:118647200-118649400	Weak transcription	Fetal Stomach	stomach
27	chr10:118647200-118650600	Enhancers	HSMM	muscle
28	chr10:118647200-118651000	Weak transcription	Brain Germinal Matrix	brain
29	chr10:118647200-118652800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr10:118647400-118649000	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr10:118647400-118649600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr10:118647400-118680000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr10:118647600-118649200	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr10:118647600-118649200	Enhancers	NH-A	brain
35	chr10:118647600-118649400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr10:118647800-118649000	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr10:118647800-118649000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr10:118647800-118649000	Flanking Active TSS	A549	lung
39	chr10:118647800-118649200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr10:118647800-118649200	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr10:118647800-118649200	Enhancers	Liver	Liver
42	chr10:118647800-118649200	Enhancers	Duodenum Mucosa	Duodenum
43	chr10:118647800-118649200	Enhancers	Rectal Mucosa Donor 31	rectum
44	chr10:118647800-118649200	Enhancers	HUVEC	blood vessel
45	chr10:118647800-118649200	Enhancers	NHDF-Ad	bronchial
46	chr10:118647800-118649400	Enhancers	Rectal Mucosa Donor 29	rectum
47	chr10:118648000-118649200	Enhancers	Esophagus	oesophagus
48	chr10:118648000-118649200	Enhancers	Stomach Mucosa	stomach
49	chr10:118648200-118652800	Weak transcription	Gastric	stomach
50	chr10:118648400-118649200	Enhancers	Brain Angular Gyrus	brain

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