Variant report

Variant	rs4751955
Chromosome Location	chr10:117923225-117923226
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	chr10:117922051..117923824-chr10:117929460..117932242,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10510016	0.94[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs10749189	0.83[CHB][hapmap];0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs10749190	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10749191	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10749194	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10749195	1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10749196	1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10749197	1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10787632	1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10787633	0.91[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10787634	0.88[ASN][1000 genomes]
rs10885867	0.87[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs10885868	0.84[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes]
rs10885870	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs11197563	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11197570	1.00[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs11197572	0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.83[ASN][1000 genomes]
rs11595700	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12267789	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12762746	0.89[ASN][1000 genomes]
rs2270181	0.95[CHB][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2420244	1.00[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2420245	1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2420246	0.89[ASN][1000 genomes]
rs3781535	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3781536	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3781537	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3781538	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3781543	1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs3781544	1.00[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4495806	1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4553287	1.00[ASW][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4751579	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7078730	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7080193	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7080212	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7087059	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7096448	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7904057	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7909875	0.82[CHD][hapmap]
rs7914706	0.89[ASN][1000 genomes]
rs7915221	1.00[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428568	chr10:117806874-117972993	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3449389	chr10:117806874-118102404	Active TSS Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs4751955	RGS10	cis	parietal	SCAN
rs4751955	TDRD1	cis	cerebellum	SCAN
rs4751955	PRDX3	cis	parietal	SCAN
rs4751955	TECTB	cis	parietal	SCAN
rs4751955	GFRA1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117915600-117924200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr10:117921800-117923600	Enhancers	Pancreas	Pancrea
3	chr10:117922000-117923600	Enhancers	Fetal Brain Male	brain
4	chr10:117922400-117923600	Enhancers	Brain Germinal Matrix	brain
5	chr10:117922400-117923600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr10:117922400-117924200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr10:117922600-117924200	Enhancers	Brain Anterior Caudate	brain
8	chr10:117922600-117924400	Enhancers	Brain Hippocampus Middle	brain
9	chr10:117922800-117923400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:117922800-117924200	Enhancers	Brain Angular Gyrus	brain
11	chr10:117922800-117924400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr10:117923200-117923600	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr10:117923200-117924600	Enhancers	Brain Substantia Nigra	brain
14	chr10:117923200-117925200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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