Variant report

Variant	rs1764800
Chromosome Location	chr1:197250615-197250616
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:197249603..197251809-chr1:197252307..197255280,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10429911	1.00[CEU][hapmap]
rs10732295	1.00[CEU][hapmap];0.85[MEX][hapmap];0.94[TSI][hapmap]
rs10732296	1.00[CEU][hapmap]
rs10754219	1.00[CEU][hapmap];0.81[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12677	0.87[CEU][hapmap]
rs1332662	0.87[CEU][hapmap]
rs1332663	0.87[CEU][hapmap]
rs1415214	0.81[YRI][hapmap]
rs1415217	1.00[CEU][hapmap]
rs1556763	1.00[CEU][hapmap];0.85[MEX][hapmap];0.82[TSI][hapmap]
rs1571964	0.87[CEU][hapmap];0.88[TSI][hapmap]
rs1764622	0.84[YRI][hapmap]
rs1764623	0.83[LWK][hapmap];0.88[YRI][hapmap]
rs1764629	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1764786	0.86[YRI][hapmap]
rs2026429	0.87[CEU][hapmap]
rs2151134	1.00[CEU][hapmap]
rs2786114	0.87[EUR][1000 genomes]
rs4244141	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4342879	1.00[CEU][hapmap]
rs4350226	1.00[CEU][hapmap]
rs476390	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs482526	0.87[YRI][hapmap]
rs4915337	0.87[CEU][hapmap]
rs4915378	1.00[CEU][hapmap]
rs4915379	1.00[CEU][hapmap];0.80[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap]
rs510135	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs518149	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs550098	0.91[YRI][hapmap]
rs552708	0.89[AMR][1000 genomes]
rs568757	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs570845	0.88[YRI][hapmap]
rs571106	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs580067	0.83[YRI][hapmap]
rs615647	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs616675	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6428390	0.83[EUR][1000 genomes]
rs643025	0.81[LWK][hapmap];0.88[YRI][hapmap]
rs658409	0.81[YRI][hapmap]
rs664767	0.80[YRI][hapmap]
rs6656448	1.00[CEU][hapmap]
rs6656858	0.87[CEU][hapmap];0.88[TSI][hapmap]
rs6677082	0.87[CEU][hapmap];0.86[TSI][hapmap]
rs6678066	0.97[EUR][1000 genomes]
rs668590	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6703400	0.87[CEU][hapmap]
rs7513826	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs7520503	1.00[CEU][hapmap];0.85[MEX][hapmap];0.82[TSI][hapmap]
rs7523013	1.00[CEU][hapmap];0.81[AMR][1000 genomes]
rs7534353	0.87[CEU][hapmap]
rs7542397	0.87[CEU][hapmap]
rs7554995	0.85[AMR][1000 genomes]
rs877897	0.87[CEU][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	nsv528460	chr1:196542567-197446702	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:197240200-197253200	Weak transcription	Brain Angular Gyrus	brain
2	chr1:197246800-197256600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr1:197249400-197251000	Enhancers	Brain Anterior Caudate	brain
4	chr1:197250200-197250800	Enhancers	Brain Substantia Nigra	brain
5	chr1:197250200-197251000	Enhancers	Brain Inferior Temporal Lobe	brain

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