Variant report

Variant	rs10496895
Chromosome Location	chr2:142525699-142525700
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	chr2:142507099..142509499-chr2:142523507..142526473,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1004304	1.00[CEU][hapmap]
rs10164495	1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs10185048	0.96[ASN][1000 genomes]
rs10496901	1.00[CHB][hapmap];0.81[JPT][hapmap];0.91[YRI][hapmap]
rs10928122	1.00[CHB][hapmap]
rs11896904	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12104666	0.82[CHB][hapmap];0.91[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1437339	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[YRI][hapmap]
rs1437340	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[YRI][hapmap]
rs16847095	1.00[CHB][hapmap]
rs16847133	1.00[CHB][hapmap]
rs16847142	1.00[CHB][hapmap]
rs16847151	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[YRI][hapmap]
rs16847202	1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[YRI][hapmap]
rs16847228	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[YRI][hapmap]
rs16847265	0.90[CHB][hapmap]
rs16847310	0.82[CHB][hapmap]
rs16847314	0.82[CHB][hapmap]
rs16847347	0.82[CHB][hapmap]
rs16847368	0.90[CHB][hapmap]
rs16847376	0.82[CHB][hapmap]
rs1816608	1.00[CHB][hapmap]
rs1946779	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs2164698	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs60606290	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60976197	0.85[ASN][1000 genomes]
rs6721767	0.91[ASN][1000 genomes]
rs6748180	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs7563727	1.00[CHB][hapmap]
rs7584919	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs7604400	1.00[CHB][hapmap]
rs906640	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs906641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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	nsv834394	chr2:142430225-142593264	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv530398	chr2:142474842-142843839	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv459663	chr2:142509570-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv583236	chr2:142509570-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv1004379	chr2:142514657-142547597	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142524000-142525800	Enhancers	NH-A	brain
2	chr2:142524400-142525800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr2:142524600-142526200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr2:142525000-142527200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr2:142525000-142530200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr2:142525200-142525800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:142525200-142526800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr2:142525400-142527200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr2:142525400-142528000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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