Variant report

Variant	rs3764220
Chromosome Location	chr15:51972058-51972059
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	chr15:51970627..51972181-chr15:52008855..52011853,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1010486	0.88[ASN][1000 genomes]
rs1017679	0.85[CHB][hapmap]
rs10519310	0.89[AMR][1000 genomes]
rs10519314	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MKK][hapmap];1.00[ASN][1000 genomes]
rs10519315	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10519316	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MKK][hapmap];1.00[ASN][1000 genomes]
rs10519318	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10519319	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10519320	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10519321	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1471072	0.85[CHB][hapmap];0.84[CHD][hapmap]
rs16964465	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16964476	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17648565	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17648801	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17705035	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2124588	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2124589	1.00[ASN][1000 genomes]
rs2124590	1.00[ASN][1000 genomes]
rs2271674	0.87[AMR][1000 genomes]
rs2305709	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MKK][hapmap];1.00[ASN][1000 genomes]
rs2305711	1.00[ASN][1000 genomes]
rs2305712	0.87[ASN][1000 genomes]
rs2305715	1.00[ASN][1000 genomes]
rs2305719	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2622770	0.85[CHB][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs3214014	1.00[ASN][1000 genomes]
rs3751593	1.00[GIH][hapmap]
rs3765067	0.98[ASN][1000 genomes]
rs3809498	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3816544	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs41286490	1.00[ASN][1000 genomes]
rs41286492	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.80[MKK][hapmap];0.98[ASN][1000 genomes]
rs60337239	1.00[ASN][1000 genomes]
rs60437890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60934476	1.00[ASN][1000 genomes]
rs7163359	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7174397	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs74013290	0.89[AMR][1000 genomes]
rs8023804	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8032454	0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv904219	chr15:51851999-51977159	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
3	nsv457139	chr15:51854718-51977159	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
4	nsv569407	chr15:51854718-51977159	Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
5	nsv1035967	chr15:51949866-52008736	Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51965600-51972200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:51966600-51973400	Weak transcription	Right Atrium	heart
3	chr15:51967400-51973000	Weak transcription	K562	blood
4	chr15:51967800-51973000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr15:51968800-51973400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:51970200-51972200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:51971800-51972800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:51972000-51972200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr15:51972000-51972800	Enhancers	Brain Hippocampus Middle	brain
10	chr15:51972000-51973000	Enhancers	Brain Angular Gyrus	brain
11	chr15:51972000-51973000	Enhancers	Brain Cingulate Gyrus	brain
12	chr15:51972000-51973200	Enhancers	Cortex derived primary cultured neurospheres	brain

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