Variant report

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10511493	0.93[CEU][hapmap]
rs10815818	0.84[ASN][1000 genomes]
rs10815819	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10976946	1.00[CHB][hapmap]
rs12554953	0.86[CEU][hapmap];0.81[CHB][hapmap]
rs12682697	1.00[CEU][hapmap]
rs12682993	1.00[CEU][hapmap]
rs12684395	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs1500315	0.95[CHB][hapmap]
rs16927547	0.93[CEU][hapmap];0.85[CHB][hapmap]
rs20514	0.93[CEU][hapmap];0.81[CHB][hapmap]
rs3736381	0.81[JPT][hapmap]
rs3780336	0.93[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap]
rs3847288	0.93[CEU][hapmap];0.81[CHB][hapmap]
rs3847291	0.93[CEU][hapmap];0.81[CHB][hapmap]
rs4742486	0.90[CEU][hapmap]
rs4742487	0.90[CHB][hapmap]
rs7848626	1.00[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap]
rs7848705	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs7848818	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs7868789	1.00[CHB][hapmap]
rs7873084	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes];0.99[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	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv892224	chr9:8263737-8338431	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	miRNA target site	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3739578	KIAA2026	cis	cerebellum	SCAN
rs3739578	FIG4	trans	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8310800-8321800	Weak transcription	Fetal Brain Female	brain
2	chr9:8310800-8323000	Weak transcription	Brain Germinal Matrix	brain
3	chr9:8311200-8322600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr9:8312200-8322600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:8312200-8338200	Weak transcription	Brain Angular Gyrus	brain
6	chr9:8312800-8322000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr9:8313800-8329400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:8314600-8321800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:8315400-8323000	Weak transcription	Brain Anterior Caudate	brain
10	chr9:8316000-8329600	Weak transcription	Ovary	ovary
11	chr9:8318200-8329000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr9:8319000-8322400	Weak transcription	Brain Hippocampus Middle	brain
13	chr9:8319000-8322800	Weak transcription	Fetal Brain Male	brain
14	chr9:8319200-8322400	Weak transcription	Brain Substantia Nigra	brain
15	chr9:8319600-8320200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:8319800-8320800	Strong transcription	Fetal Lung	lung

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