Variant report

Variant	rs12242936
Chromosome Location	chr10:98103376-98103377
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10509707	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs10882767	1.00[CEU][hapmap]
rs11188710	1.00[CEU][hapmap]
rs11188724	0.81[JPT][hapmap];0.82[LWK][hapmap]
rs11188725	0.81[JPT][hapmap];0.82[LWK][hapmap]
rs11188729	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11188730	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11188731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12244618	1.00[ASW][hapmap]
rs12253096	1.00[YRI][hapmap]
rs12254673	1.00[YRI][hapmap]
rs12256383	0.82[AFR][1000 genomes]
rs12261999	0.82[AFR][1000 genomes]
rs12262883	1.00[YRI][hapmap]
rs12411642	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12412600	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12413089	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12569756	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs12570008	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12571241	0.81[JPT][hapmap];1.00[YRI][hapmap]
rs12572329	0.81[JPT][hapmap];0.82[LWK][hapmap]
rs12572610	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs17111540	1.00[CEU][hapmap]
rs17111736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1923702	0.87[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs2146385	1.00[CEU][hapmap];0.88[GIH][hapmap]
rs2146393	0.81[JPT][hapmap]
rs2273892	1.00[CEU][hapmap]
rs28384391	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2901989	0.81[JPT][hapmap];1.00[YRI][hapmap]
rs3789939	1.00[CEU][hapmap];0.87[GIH][hapmap]
rs3814224	0.81[JPT][hapmap];0.90[LWK][hapmap];1.00[YRI][hapmap]
rs7072251	0.88[GIH][hapmap];0.85[MKK][hapmap]
rs734225	1.00[CEU][hapmap]
rs734226	1.00[CEU][hapmap];0.87[GIH][hapmap]
rs7896766	1.00[CEU][hapmap]
rs9651412	1.00[YRI][hapmap]
rs9651413	0.82[AFR][1000 genomes]
rs9971056	1.00[YRI][hapmap];0.82[AFR][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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv831950	chr10:98080972-98245434	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98100000-98103600	Weak transcription	Fetal Thymus	thymus
2	chr10:98100200-98103600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr10:98100200-98104200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr10:98100800-98104000	Strong transcription	Dnd41	blood
5	chr10:98100800-98105000	Strong transcription	Thymus	Thymus
6	chr10:98101200-98103800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:98101400-98105600	Weak transcription	Brain Anterior Caudate	brain
8	chr10:98101400-98105600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr10:98101600-98103600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:98101600-98104200	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr10:98101600-98104800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr10:98101600-98104800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr10:98101600-98104800	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr10:98101600-98104800	Weak transcription	Brain Substantia Nigra	brain
15	chr10:98101600-98105000	Weak transcription	Brain Hippocampus Middle	brain
16	chr10:98101600-98105400	Weak transcription	Brain Angular Gyrus	brain
17	chr10:98101600-98105600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr10:98101600-98105600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:98101800-98103600	Enhancers	Liver	Liver
20	chr10:98102000-98103600	Weak transcription	GM12878-XiMat	blood
21	chr10:98103200-98104400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell

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