Variant report

Variant	rs10178431
Chromosome Location	chr2:210704907-210704908
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:210686415..210689045-chr2:210704014..210706614,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10178425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10178675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.86[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10188289	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];0.93[LWK][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10194322	0.87[ASW][hapmap];0.85[GIH][hapmap];0.81[LWK][hapmap];0.92[TSI][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10194333	0.85[YRI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10490024	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10490026	0.81[ASW][hapmap]
rs10490028	0.81[ASW][hapmap]
rs11270377	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12329303	0.81[ASW][hapmap]
rs12386218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13028068	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13414802	0.81[YRI][hapmap]
rs1558474	0.81[ASW][hapmap]
rs16843780	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2191906	1.00[CHB][hapmap];0.83[TSI][hapmap];0.83[YRI][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6752217	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7566741	0.81[ASW][hapmap]
rs7593426	0.81[ASW][hapmap]
rs9288414	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv3142	chr2:210660150-210705006	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
2	nsv431969	chr2:210682494-211074494	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210680000-210706800	Weak transcription	Brain Hippocampus Middle	brain
2	chr2:210682000-210769600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr2:210685800-210708400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr2:210686000-210720400	Weak transcription	Brain Angular Gyrus	brain
5	chr2:210686400-210705200	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr2:210702400-210710000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr2:210703800-210707800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr2:210704000-210705200	Strong transcription	Brain Inferior Temporal Lobe	brain
9	chr2:210704000-210705400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr2:210704000-210706000	Strong transcription	Brain Anterior Caudate	brain
11	chr2:210704000-210706000	Strong transcription	Fetal Brain Female	brain
12	chr2:210704200-210706000	Strong transcription	Brain Germinal Matrix	brain
13	chr2:210704400-210706000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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