Variant report

Variant	rs402973
Chromosome Location	chr11:16892477-16892478
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:16885665..16888585-chr11:16888891..16892967,5	MCF-7	breast:
2	chr11:16885788..16888348-chr11:16890918..16893317,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10741716	0.80[CHB][hapmap]
rs10766354	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10766355	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10766356	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10832695	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11024074	0.85[JPT][hapmap];0.82[LWK][hapmap]
rs11829035	0.88[JPT][hapmap]
rs177542	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs177543	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2041236	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2215085	0.80[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.92[MEX][hapmap]
rs365215	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs370161	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs373789	0.97[ASN][1000 genomes]
rs378755	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs379765	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs382734	0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs384735	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs385228	0.97[ASN][1000 genomes]
rs392500	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs392509	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs415300	0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs416258	0.89[JPT][hapmap]
rs426144	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs428120	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs432373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs433660	0.97[ASN][1000 genomes]
rs439036	0.97[ASN][1000 genomes]
rs442389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs450954	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4756878	0.80[CHB][hapmap]
rs4757444	0.80[CEU][hapmap];0.87[CHB][hapmap]
rs4757446	0.80[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.92[MEX][hapmap]
rs55646909	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7117745	0.80[CEU][hapmap];0.87[CHB][hapmap]
rs7121911	0.80[CHB][hapmap]
rs7128212	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7481080	0.87[CEU][hapmap];0.91[MEX][hapmap]
rs7931794	0.80[CHB][hapmap]

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	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs402973	TEAD1	cis	parietal	SCAN

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16863800-16892600	Weak transcription	Fetal Kidney	kidney
2	chr11:16872000-16895800	Weak transcription	Aorta	Aorta
3	chr11:16876800-16898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr11:16877800-16899600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr11:16882400-16894800	Weak transcription	Pancreas	Pancrea
6	chr11:16882400-16895800	Weak transcription	Gastric	stomach
7	chr11:16882600-16898400	Weak transcription	Ovary	ovary
8	chr11:16884600-16897600	Weak transcription	Brain Hippocampus Middle	brain
9	chr11:16884800-16897600	Weak transcription	Brain Anterior Caudate	brain
10	chr11:16884800-16900000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr11:16885000-16900200	Weak transcription	Stomach Mucosa	stomach
12	chr11:16885200-16894000	Weak transcription	Left Ventricle	heart
13	chr11:16885200-16894800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr11:16885200-16894800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr11:16885200-16902400	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr11:16885400-16894800	Weak transcription	Right Ventricle	heart
17	chr11:16885400-16900800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr11:16885800-16892800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr11:16886800-16893000	Strong transcription	Fetal Intestine Small	intestine
20	chr11:16888800-16892800	Genic enhancers	Fetal Heart	heart
21	chr11:16889200-16892600	Weak transcription	HMEC	breast
22	chr11:16890000-16892800	Strong transcription	Esophagus	oesophagus
23	chr11:16890200-16895600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr11:16890200-16897600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr11:16890400-16899000	Weak transcription	Adipose Nuclei	Adipose
26	chr11:16891000-16892800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr11:16891000-16893200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:16891000-16893600	Enhancers	HSMMtube	muscle
29	chr11:16891000-16894200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr11:16891000-16900000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr11:16891000-16900800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr11:16891000-16901000	Weak transcription	Lung	lung
33	chr11:16891200-16904600	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr11:16891600-16893000	Enhancers	Placenta Amnion	Placenta Amnion
35	chr11:16891600-16894000	Enhancers	HSMM	muscle
36	chr11:16891600-16897600	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr11:16891600-16903600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr11:16891800-16895600	Weak transcription	HepG2	liver
39	chr11:16891800-16895800	Weak transcription	Fetal Intestine Large	intestine
40	chr11:16891800-16899200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr11:16892000-16896000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr11:16892000-16897400	Weak transcription	Placenta	Placenta
43	chr11:16892200-16893400	Enhancers	Fetal Stomach	stomach
44	chr11:16892200-16895600	Weak transcription	Duodenum Mucosa	Duodenum
45	chr11:16892200-16896200	Weak transcription	Liver	Liver
46	chr11:16892400-16893400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr11:16892400-16894000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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