Variant report

Variant	rs974676
Chromosome Location	chr18:29200724-29200725
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	chr18:29197834..29199382-chr18:29200132..29202800,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1026122	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1026123	0.87[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs1078998	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12962843	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1612691	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs1621308	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1667262	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1667274	0.85[CEU][hapmap];0.90[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1667275	0.86[CHD][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs1667276	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1667279	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs1667280	0.89[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs1667281	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs1667283	0.83[ASN][1000 genomes]
rs1667284	0.89[CHD][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1667286	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1791161	0.89[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs1791169	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1791171	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs1791181	0.81[ASN][1000 genomes]
rs1791192	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1791193	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1791221	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs2595360	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[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]
rs3764474	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3794878	0.85[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3794882	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41447647	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4799311	0.94[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.87[LWK][hapmap];0.95[MEX][hapmap];0.81[MKK][hapmap];0.98[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6506935	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7232056	0.88[EUR][1000 genomes]
rs7242641	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8097755	0.88[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.90[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs895888	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs974677	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9950458	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909519	chr18:29172865-29330214	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29191200-29201400	Weak transcription	Fetal Brain Male	brain
2	chr18:29191400-29207000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr18:29191400-29207800	Weak transcription	Fetal Intestine Large	intestine
4	chr18:29191600-29205200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr18:29191800-29204800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr18:29191800-29207800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr18:29192200-29206200	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr18:29192400-29217400	Weak transcription	Left Ventricle	heart
9	chr18:29194800-29205000	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr18:29194800-29226800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr18:29195200-29204800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr18:29195400-29205400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr18:29195600-29206000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr18:29197000-29205200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr18:29197200-29210600	Weak transcription	Duodenum Mucosa	Duodenum
16	chr18:29197400-29207800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr18:29197600-29204800	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr18:29197600-29204800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr18:29197600-29206400	Weak transcription	Fetal Intestine Small	intestine
20	chr18:29197600-29224800	Weak transcription	Brain Anterior Caudate	brain
21	chr18:29197600-29224800	Weak transcription	Brain Germinal Matrix	brain
22	chr18:29197800-29204800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr18:29197800-29206200	Weak transcription	GM12878-XiMat	blood
24	chr18:29198400-29204000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr18:29199200-29212400	Weak transcription	Aorta	Aorta
26	chr18:29199800-29204800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr18:29199800-29217200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr18:29200000-29201200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr18:29200000-29202400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr18:29200000-29204800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr18:29200000-29222400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr18:29200200-29208600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr18:29200200-29222000	Weak transcription	HMEC	breast
34	chr18:29200400-29201200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr18:29200400-29210400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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