Variant report

Variant	rs1557570
Chromosome Location	chr1:169507844-169507845
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169453358..169456448-chr1:169507622..169509906,3	MCF-7	breast:
2	chr1:169453945..169456967-chr1:169506967..169510528,4	K562	blood:
3	chr1:169445664..169448576-chr1:169507700..169509701,2	MCF-7	breast:
4	chr1:169477985..169481647-chr1:169506965..169511270,5	MCF-7	breast:
5	chr1:169488300..169490005-chr1:169506177..169508361,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000117479	Chromatin interaction
ENSG00000213062	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10800453	0.94[AFR][1000 genomes]
rs10800454	0.89[EUR][1000 genomes]
rs1121789	1.00[CHB][hapmap]
rs1557572	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs2040444	0.83[JPT][hapmap]
rs2157581	0.87[EUR][1000 genomes]
rs2187952	0.84[CHB][hapmap]
rs2227244	0.84[CHB][hapmap]
rs2239851	0.80[CEU][hapmap];0.92[CHB][hapmap];0.87[YRI][hapmap]
rs2239852	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs2301515	0.90[CEU][hapmap];0.85[EUR][1000 genomes]
rs2420369	0.83[JPT][hapmap]
rs3766103	0.88[JPT][hapmap]
rs3766109	0.92[CHB][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes]
rs3820060	0.95[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4524	0.80[CEU][hapmap];0.92[CHB][hapmap];0.87[YRI][hapmap]
rs4525	0.80[CEU][hapmap];0.92[CHB][hapmap];0.87[YRI][hapmap]
rs4656185	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4656187	0.92[CHB][hapmap]
rs4656685	0.80[CEU][hapmap];0.84[CHB][hapmap]
rs4656687	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs6016	0.80[CEU][hapmap];0.81[YRI][hapmap]
rs6017	0.80[CEU][hapmap];0.92[CHB][hapmap];0.87[YRI][hapmap]
rs6021	0.92[CHB][hapmap];0.89[YRI][hapmap]
rs6030	0.95[CEU][hapmap];0.84[CHB][hapmap];0.87[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6032	0.92[CHB][hapmap];0.89[YRI][hapmap]
rs6662593	0.80[CEU][hapmap];0.92[CHB][hapmap]
rs6670407	0.87[JPT][hapmap]
rs6686805	0.87[EUR][1000 genomes]
rs6701330	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7535409	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs916438	0.90[CEU][hapmap];0.86[EUR][1000 genomes]
rs9287090	0.85[AFR][1000 genomes]
rs9332599	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9332600	0.80[CEU][hapmap];0.92[CHB][hapmap];0.87[YRI][hapmap]
rs9332619	0.80[CEU][hapmap];0.92[CHB][hapmap]
rs9332620	0.80[CEU][hapmap];0.92[CHB][hapmap]
rs9332627	0.80[CEU][hapmap];0.92[CHB][hapmap]
rs9332635	0.90[CHB][hapmap]
rs9332643	0.80[CEU][hapmap]
rs9332653	0.84[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs9332655	0.90[CEU][hapmap];0.84[CHB][hapmap]
rs9332665	0.95[CEU][hapmap];0.84[CHB][hapmap];0.94[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9332667	0.84[CHB][hapmap]
rs970741	0.80[CEU][hapmap];0.84[CHB][hapmap]
rs974793	0.80[CEU][hapmap];0.84[CHB][hapmap]

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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv872533	chr1:169490401-169508576	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169485400-169510600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr1:169496000-169515200	Strong transcription	Liver	Liver
3	chr1:169498400-169524000	Weak transcription	Placenta	Placenta
4	chr1:169499000-169508400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:169499000-169519000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr1:169500200-169526800	Weak transcription	Left Ventricle	heart
7	chr1:169504000-169515000	Strong transcription	HepG2	liver
8	chr1:169505200-169510200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr1:169505800-169511000	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr1:169505800-169534800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr1:169506000-169510800	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr1:169506200-169542800	Weak transcription	Right Ventricle	heart
13	chr1:169506800-169508400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr1:169507000-169530800	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr1:169507400-169509600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr1:169507800-169508000	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr1:169507800-169508800	Enhancers	Hela-S3	cervix
18	chr1:169507800-169509000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr1:169507800-169509000	Enhancers	HSMMtube	muscle
20	chr1:169507800-169509200	Enhancers	NHEK	skin

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