Variant report

Variant	rs7479189
Chromosome Location	chr11:47057009-47057010
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10466478	1.00[CEU][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1055447	0.84[ASN][1000 genomes]
rs1060573	1.00[CEU][hapmap];0.89[ASN][1000 genomes]
rs10769230	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10769233	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10769234	1.00[CEU][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10769239	0.92[ASN][1000 genomes]
rs10838649	0.81[AMR][1000 genomes]
rs10838654	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838659	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10838660	1.00[CEU][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11039074	1.00[CEU][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11039086	0.92[ASN][1000 genomes]
rs11039097	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11039105	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11039107	0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11039112	1.00[CEU][hapmap];0.92[YRI][hapmap];0.89[ASN][1000 genomes]
rs11039119	0.95[CEU][hapmap];0.89[ASN][1000 genomes]
rs11039124	0.86[ASN][1000 genomes]
rs11039134	0.80[ASN][1000 genomes]
rs11600668	0.95[CEU][hapmap];0.89[ASN][1000 genomes]
rs12224096	0.95[CEU][hapmap];0.89[YRI][hapmap];0.89[ASN][1000 genomes]
rs12273333	0.85[YRI][hapmap]
rs12291341	0.81[ASN][1000 genomes]
rs12796744	1.00[CEU][hapmap];0.93[ASN][1000 genomes]
rs12807887	0.86[ASN][1000 genomes]
rs1872896	1.00[CEU][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1965952	0.89[ASN][1000 genomes]
rs1976143	0.81[ASN][1000 genomes]
rs2018527	0.89[ASN][1000 genomes]
rs2029298	0.95[CEU][hapmap];0.81[ASN][1000 genomes]
rs4237547	0.81[ASN][1000 genomes]
rs4319472	0.95[CEU][hapmap];0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4567413	0.95[CEU][hapmap];0.81[ASN][1000 genomes]
rs4579897	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4752952	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4752957	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4752962	0.95[CEU][hapmap];0.96[YRI][hapmap];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4752963	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4752967	0.95[CEU][hapmap];0.93[YRI][hapmap];0.89[ASN][1000 genomes]
rs4752971	0.91[CEU][hapmap];0.86[ASN][1000 genomes]
rs57323109	0.89[ASN][1000 genomes]
rs6485721	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6485722	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6485739	1.00[CEU][hapmap];0.91[ASN][1000 genomes]
rs7103581	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7108427	0.85[ASN][1000 genomes]
rs7108902	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7111764	0.81[ASN][1000 genomes]
rs7118546	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7119952	0.83[ASN][1000 genomes]
rs7121418	1.00[CEU][hapmap];0.89[ASN][1000 genomes]
rs7125807	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7128325	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs747650	1.00[CEU][hapmap];0.92[YRI][hapmap];0.89[ASN][1000 genomes]
rs7931260	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7937101	0.95[CEU][hapmap];0.81[ASN][1000 genomes]
rs7937950	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7942473	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7945315	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7946709	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7947878	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9633886	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1805201	chr11:46971012-47063429	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv1819852	chr11:46971012-47064542	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1043108	chr11:47041565-47117248	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv312	chr11:47047247-47072397	Weak transcription Enhancers ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv508627	chr11:47052659-47084007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv33095	chr11:47054281-47064767	Enhancers Weak transcription ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3403717	chr11:47055876-47060874	Weak transcription ZNF genes & repeats Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv3507746	chr11:47056426-47060174	ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3507745	chr11:47056626-47059024	Weak transcription ZNF genes & repeats Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv3507747	chr11:47056626-47059024	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv3517629	chr11:47056901-47064924	Weak transcription ZNF genes & repeats Enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7479189	LRP4	cis	Nerve Tibial	GTEx
rs7479189	CTD-2384B9.1	cis	Nerve Tibial	GTEx

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47026800-47080200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:47048800-47058000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr11:47053400-47077600	Weak transcription	Primary T cells from cord blood	blood
4	chr11:47055200-47057600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr11:47055200-47062000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:47055400-47058200	Weak transcription	NHDF-Ad	bronchial
7	chr11:47055400-47058800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr11:47055400-47077200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr11:47055600-47077800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:47056200-47058400	Weak transcription	Fetal Intestine Small	intestine
11	chr11:47056400-47073600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr11:47056600-47057200	ZNF genes & repeats	Hela-S3	cervix
13	chr11:47056600-47073800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr11:47057000-47058600	Weak transcription	K562	blood

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