Variant report

Variant	rs2060898
Chromosome Location	chr12:44997199-44997200
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10748401	0.88[CEU][hapmap]
rs10785513	0.82[CHD][hapmap];0.86[GIH][hapmap]
rs10785520	0.88[CEU][hapmap]
rs10785526	0.90[CEU][hapmap]
rs10785527	0.88[CEU][hapmap]
rs10880668	0.88[CEU][hapmap]
rs10880672	0.88[CEU][hapmap]
rs11182552	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12314678	0.85[ASN][1000 genomes]
rs1450540	0.88[CEU][hapmap]
rs1470803	1.00[CEU][hapmap];0.88[CHD][hapmap];0.98[GIH][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1545496	0.87[CHB][hapmap];0.91[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs17094865	0.85[ASN][1000 genomes]
rs17094882	0.88[CEU][hapmap];0.81[GIH][hapmap]
rs1966856	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2060839	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2060841	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs2060842	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2060895	0.95[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.98[ASN][1000 genomes]
rs2060896	0.95[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.97[ASN][1000 genomes]
rs2060897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2060899	0.94[ASW][hapmap];1.00[CEU][hapmap];0.86[CHD][hapmap];0.98[GIH][hapmap];0.81[JPT][hapmap];0.83[LWK][hapmap];0.87[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2084614	0.88[CEU][hapmap]
rs2218943	0.88[CEU][hapmap]
rs2408047	0.83[CEU][hapmap]
rs4641544	0.84[ASN][1000 genomes]
rs4768562	0.86[CHD][hapmap];0.86[GIH][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs586188	0.88[CEU][hapmap]
rs590905	0.88[CEU][hapmap]
rs617006	0.88[CEU][hapmap]
rs625691	0.83[CEU][hapmap]
rs633526	0.88[CEU][hapmap]
rs641782	0.88[CEU][hapmap]
rs6582508	0.85[ASN][1000 genomes]
rs6582509	0.86[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs6582515	0.88[CEU][hapmap]
rs683285	0.91[CEU][hapmap]
rs686110	0.88[CEU][hapmap]
rs7134952	0.98[ASN][1000 genomes]
rs7304431	1.00[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs765770	0.92[CEU][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7958608	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.97[ASN][1000 genomes]
rs7966743	0.81[CEU][hapmap];0.96[ASN][1000 genomes]
rs7966744	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049818	chr12:44486312-45133783	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2762976	chr12:44969431-45000228	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:44940200-44999600	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr12:44943400-44998600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr12:44966800-45000600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr12:44977400-44998800	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr12:44986600-45006600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr12:44986800-45015800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr12:44987200-44997600	Weak transcription	Fetal Brain Male	brain
8	chr12:44990400-45004800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr12:44991600-44997800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr12:44992000-44999400	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr12:44992200-45006400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr12:44993000-45006800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr12:44994400-45004200	Weak transcription	Brain Germinal Matrix	brain
14	chr12:44995800-45001400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr12:44995800-45003000	Weak transcription	Fetal Brain Female	brain
16	chr12:44996200-44997400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr12:44996800-44998400	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr12:44997000-44999400	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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