Variant report

Variant	rs11011407
Chromosome Location	chr10:38234951-38234952
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10764147	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10827835	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10827836	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1208559	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1208592	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1208681	0.84[AMR][1000 genomes]
rs1208684	0.83[AMR][1000 genomes]
rs1208689	0.86[AMR][1000 genomes]
rs13503	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1735577	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs200903	0.87[AMR][1000 genomes]
rs200910	0.90[AMR][1000 genomes]
rs200924	0.90[AMR][1000 genomes]
rs200935	0.90[AMR][1000 genomes]
rs200936	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs200937	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs200939	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs200943	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2144849	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2180408	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2257186	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2472150	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2504130	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2504155	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2505232	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3851078	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4934916	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs496627	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs527163	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs619739	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs623149	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs623454	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs626519	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs629577	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs639479	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs640774	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs645064	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs662945	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7069702	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7099777	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs719569	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv1051121	chr10:38155991-38426204	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv540565	chr10:38155991-38426204	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv1052703	chr10:38174640-38266472	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11011407	ZNF37A///ZNF37B	Cis_1M	lymphoblastoid	RTeQTL
rs11011407	HSD17B7///HSD17B7P2///LOC730412	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38201400-38240000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr10:38220800-38241000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr10:38223400-38241000	Weak transcription	Brain Angular Gyrus	brain
4	chr10:38223600-38240600	Weak transcription	Aorta	Aorta
5	chr10:38227400-38241000	Weak transcription	Colon Smooth Muscle	Colon
6	chr10:38227400-38241600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr10:38227600-38238000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr10:38227800-38239200	Weak transcription	Adipose Nuclei	Adipose
9	chr10:38229400-38238000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr10:38229400-38241000	Weak transcription	Fetal Brain Male	brain
11	chr10:38229600-38240600	Weak transcription	Right Ventricle	heart
12	chr10:38230400-38236800	Weak transcription	Ovary	ovary
13	chr10:38231600-38238800	Weak transcription	Brain Anterior Caudate	brain
14	chr10:38231800-38238400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr10:38231800-38239600	Weak transcription	Brain Substantia Nigra	brain
16	chr10:38232000-38240200	Weak transcription	Fetal Brain Female	brain
17	chr10:38232400-38241000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr10:38232600-38236800	Weak transcription	Fetal Muscle Leg	muscle
19	chr10:38232600-38240400	Weak transcription	Fetal Lung	lung
20	chr10:38232800-38236800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:38232800-38238000	Weak transcription	Primary B cells from cord blood	blood
22	chr10:38233000-38237000	Weak transcription	Lung	lung
23	chr10:38233000-38239200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:38233000-38240000	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr10:38233000-38241200	Weak transcription	Esophagus	oesophagus
26	chr10:38233200-38235000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr10:38233200-38238600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr10:38233200-38240400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr10:38233400-38240200	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr10:38233400-38241000	Weak transcription	Spleen	Spleen
31	chr10:38234000-38241600	Weak transcription	Small Intestine	intestine
32	chr10:38234200-38235000	Strong transcription	Left Ventricle	heart
33	chr10:38234200-38241000	Weak transcription	Thymus	Thymus
34	chr10:38234400-38235000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr10:38234400-38236200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr10:38234800-38236800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr10:38234800-38238200	Weak transcription	Brain Hippocampus Middle	brain
38	chr10:38234800-38239400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr10:38234800-38240200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr10:38234800-38241000	Weak transcription	Brain Germinal Matrix	brain

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