Variant report

Variant	rs3780337
Chromosome Location	chr9:8332033-8332034
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10511491	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10733546	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10739155	0.96[CEU][hapmap];0.98[EUR][1000 genomes]
rs10739156	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10758956	0.95[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10758957	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10758958	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10758959	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10815823	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10815826	0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10815827	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10815828	0.87[ASN][1000 genomes]
rs10976970	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11543915	0.80[EUR][1000 genomes]
rs11794527	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12238805	0.90[ASN][1000 genomes]
rs12682837	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1587485	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28891834	0.97[ASN][1000 genomes]
rs3765142	0.92[ASN][1000 genomes]
rs3765143	0.91[ASN][1000 genomes]
rs4740935	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4740936	0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4740937	0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4740939	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4740940	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4740941	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4742483	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4742485	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7032880	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7850069	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7851892	0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7853112	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856860	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7856922	0.87[ASN][1000 genomes]
rs7857177	0.87[ASN][1000 genomes]
rs7873177	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[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

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8312200-8338200	Weak transcription	Brain Angular Gyrus	brain
2	chr9:8323400-8341600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:8323800-8341600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr9:8324000-8345000	Weak transcription	Fetal Brain Male	brain
5	chr9:8324400-8337400	Weak transcription	Brain Germinal Matrix	brain
6	chr9:8326800-8337400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr9:8327200-8338000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:8328000-8338000	Weak transcription	Dnd41	blood
9	chr9:8328200-8338600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:8328800-8338200	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr9:8329800-8339800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:8330000-8337800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr9:8330000-8338000	Weak transcription	Liver	Liver
14	chr9:8330000-8338600	Weak transcription	Brain Substantia Nigra	brain
15	chr9:8330000-8348600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr9:8330200-8337400	Weak transcription	Pancreas	Pancrea
17	chr9:8330200-8337800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr9:8330200-8337800	Weak transcription	Fetal Muscle Leg	muscle
19	chr9:8330200-8337800	Weak transcription	Ovary	ovary
20	chr9:8330200-8338600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr9:8330200-8339800	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr9:8330200-8339800	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr9:8330200-8340200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:8330200-8340400	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr9:8330200-8340800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:8330200-8342200	Weak transcription	Fetal Muscle Trunk	muscle
27	chr9:8330200-8364200	Weak transcription	Brain Anterior Caudate	brain
28	chr9:8330400-8337400	Weak transcription	Fetal Brain Female	brain
29	chr9:8330400-8337600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr9:8330400-8338200	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:8330400-8338200	Weak transcription	Fetal Stomach	stomach
32	chr9:8330400-8340000	Weak transcription	Placenta	Placenta
33	chr9:8330600-8332200	Weak transcription	Primary hematopoietic stem cells	blood
34	chr9:8330600-8333000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr9:8330600-8337400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr9:8331200-8337400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr9:8331400-8333200	Strong transcription	Fetal Lung	lung
38	chr9:8331400-8342000	Weak transcription	Fetal Kidney	kidney
39	chr9:8331600-8333200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:8331600-8333800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr9:8331800-8333200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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