Variant report

Variant	rs7922058
Chromosome Location	chr10:90034039-90034040
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10509540	0.80[ASN][1000 genomes]
rs12415812	0.83[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs12416116	0.82[ASN][1000 genomes]
rs166976	0.81[ASN][1000 genomes]
rs17110523	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2018705	0.81[ASN][1000 genomes]
rs286487	0.83[ASN][1000 genomes]
rs3781196	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3781197	1.00[ASW][hapmap];0.82[CEU][hapmap];0.93[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.85[LWK][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs45585838	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs558443	0.90[EUR][1000 genomes]
rs7068821	0.82[CHB][hapmap];0.80[ASN][1000 genomes]
rs7094781	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs737391	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9665166	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs999951	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[CHD][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[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	nsv467414	chr10:90006507-90042154	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7922058	CH25H	cis	cerebellum	SCAN
rs7922058	PCGF5	cis	cerebellum	SCAN
rs7922058	LIPJ	cis	cerebellum	SCAN

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90028600-90034800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr10:90031400-90041200	Weak transcription	Fetal Stomach	stomach
3	chr10:90031600-90034200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr10:90032000-90034200	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr10:90032000-90034800	Enhancers	Dnd41	blood
6	chr10:90032000-90038800	Weak transcription	Thymus	Thymus
7	chr10:90032000-90039200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr10:90032000-90040600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:90032000-90042000	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr10:90032400-90034800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:90032400-90034800	Enhancers	GM12878-XiMat	blood
12	chr10:90032400-90038400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr10:90032400-90041000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:90032600-90041200	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr10:90032800-90038800	Weak transcription	Fetal Thymus	thymus
16	chr10:90032800-90041000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr10:90032800-90042400	Weak transcription	Right Atrium	heart
18	chr10:90033000-90038000	Weak transcription	NH-A	brain
19	chr10:90033000-90038600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr10:90033000-90041000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr10:90033400-90034400	Enhancers	Fetal Lung	lung
22	chr10:90033600-90038600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr10:90033600-90039000	Weak transcription	Primary B cells from cord blood	blood
24	chr10:90034000-90034400	Enhancers	Breast Myoepithelial Primary Cells	Breast

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