Variant report

Variant	rs8027160
Chromosome Location	chr15:92505227-92505228
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92495489..92497057-chr15:92505044..92507956,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10454699	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs10852164	0.93[CHD][hapmap]
rs10852165	0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10852166	0.95[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11074027	0.80[CHB][hapmap]
rs11635055	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs12901238	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12902685	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs12903803	0.84[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap]
rs12905744	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs12909480	0.85[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs12910715	0.90[CEU][hapmap];0.81[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap]
rs12910862	0.95[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs1356417	0.80[ASN][1000 genomes]
rs1568210	0.81[CHB][hapmap];0.85[CHD][hapmap];0.86[JPT][hapmap]
rs16946157	0.94[ASN][1000 genomes]
rs16946164	0.94[ASN][1000 genomes]
rs16946168	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2138849	0.95[CEU][hapmap];0.81[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs2176452	0.86[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.81[LWK][hapmap];0.86[MKK][hapmap];0.81[TSI][hapmap]
rs28470895	0.94[ASN][1000 genomes]
rs28513490	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28752332	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4312282	0.82[CEU][hapmap];0.81[CHB][hapmap]
rs4932592	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes]
rs4932593	0.86[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap]
rs61155306	0.87[ASN][1000 genomes]
rs7165760	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7171131	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7172099	0.81[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap]
rs7172159	0.91[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.86[LWK][hapmap];0.90[MKK][hapmap];0.84[TSI][hapmap];0.91[ASN][1000 genomes]
rs7178673	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7179815	0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs8025507	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8040046	0.86[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap]
rs953888	0.90[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap]
rs976216	0.80[ASN][1000 genomes]
rs9920069	0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8027160	MESP2	cis	parietal	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92495400-92505400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr15:92498200-92555000	Weak transcription	Gastric	stomach
3	chr15:92499600-92505800	Weak transcription	Brain Cingulate Gyrus	brain
4	chr15:92500000-92505800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:92500200-92509600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:92500800-92508600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:92500800-92508800	Weak transcription	Ovary	ovary
8	chr15:92504600-92506000	Enhancers	Left Ventricle	heart
9	chr15:92504600-92506200	Enhancers	Right Atrium	heart
10	chr15:92504600-92506400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:92504800-92505400	Enhancers	Right Ventricle	heart
12	chr15:92504800-92507400	Weak transcription	Hela-S3	cervix
13	chr15:92504800-92507800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr15:92504800-92508200	Weak transcription	Brain Substantia Nigra	brain
15	chr15:92505000-92505800	Enhancers	Adipose Nuclei	Adipose
16	chr15:92505000-92507200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr15:92505000-92507600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr15:92505000-92507600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:92505000-92507600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr15:92505000-92507600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr15:92505000-92508000	Weak transcription	A549	lung
22	chr15:92505200-92505400	Enhancers	Lung	lung
23	chr15:92505200-92505600	Weak transcription	Brain Hippocampus Middle	brain
24	chr15:92505200-92505800	Enhancers	Monocytes-CD14+_RO01746	blood
25	chr15:92505200-92506000	Enhancers	Primary neutrophils fromperipheralblood	blood
26	chr15:92505200-92506000	Enhancers	Primary T cells fromperipheralblood	blood
27	chr15:92505200-92506000	Enhancers	Colonic Mucosa	Colon
28	chr15:92505200-92506000	Enhancers	Esophagus	oesophagus
29	chr15:92505200-92506200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr15:92505200-92507200	Weak transcription	HMEC	breast
31	chr15:92505200-92507200	Weak transcription	NHEK	skin
32	chr15:92505200-92508200	Weak transcription	Primary T helper cells PMA-I stimulated	--

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