Variant report

Variant	rs10815955
Chromosome Location	chr9:8814324-8814325
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10758999	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10759000	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10815956	1.00[CEU][hapmap];0.96[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10815957	0.88[EUR][1000 genomes]
rs10815958	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10815962	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10815963	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10815966	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10815967	0.84[ASW][hapmap];0.93[CEU][hapmap];0.90[CHB][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10815968	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10815969	0.83[EUR][1000 genomes]
rs10815970	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10815976	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs10977308	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10977309	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10977310	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10977312	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10977319	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1368980	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1865339	0.81[CHB][hapmap]
rs7037145	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7042203	0.93[CEU][hapmap];0.93[MEX][hapmap];0.81[TSI][hapmap];0.83[EUR][1000 genomes]
rs9918965	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv892235	chr9:8700396-8865925	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1025800	chr9:8712487-9030627	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv539980	chr9:8712487-9030627	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv892236	chr9:8745520-8870553	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1015898	chr9:8753534-9011443	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv892240	chr9:8796449-8834108	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases
8	nsv892241	chr9:8805462-8822267	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10815955	INSL4	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8794200-8821800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:8794800-8825600	Weak transcription	Ovary	ovary
3	chr9:8798400-8815400	Weak transcription	Fetal Brain Male	brain
4	chr9:8802600-8815200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr9:8806800-8816000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:8808000-8825600	Weak transcription	Aorta	Aorta
7	chr9:8809000-8815200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr9:8809400-8815800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr9:8810600-8815600	Weak transcription	Brain Anterior Caudate	brain
10	chr9:8810600-8822600	Weak transcription	Fetal Muscle Leg	muscle
11	chr9:8811200-8814600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr9:8812000-8814400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr9:8812000-8814400	Weak transcription	Fetal Heart	heart
14	chr9:8812000-8815600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:8812000-8815800	Weak transcription	Fetal Lung	lung
16	chr9:8812200-8815800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr9:8812600-8814400	Enhancers	Brain Substantia Nigra	brain
18	chr9:8813000-8814600	Weak transcription	Liver	Liver
19	chr9:8813200-8815800	Weak transcription	Brain Germinal Matrix	brain
20	chr9:8813600-8816000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr9:8813800-8815400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr9:8814200-8814400	Enhancers	H9 Cell Line	embryonic stem cell
23	chr9:8814200-8814600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr9:8814200-8817200	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr9:8814200-8817400	Enhancers	Brain Hippocampus Middle	brain
26	chr9:8814200-8817600	Enhancers	Brain Angular Gyrus	brain
27	chr9:8814200-8817800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr9:8814200-8818400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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