Variant report

Variant	rs2804675
Chromosome Location	chr10:38659784-38659785
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1892144	0.91[CHB][hapmap];0.91[JPT][hapmap];0.86[YRI][hapmap]
rs2145672	0.96[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.84[YRI][hapmap]
rs2505202	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[YRI][hapmap]
rs2505203	0.83[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2754353	0.91[CHB][hapmap];0.91[JPT][hapmap];0.84[YRI][hapmap]
rs2754360	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2754361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2754495	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.86[YRI][hapmap]
rs2800485	1.00[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap]
rs2804641	0.91[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap]
rs2804649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 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	nsv540566	chr10:38301001-38680127	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	esv33710	chr10:38545898-38671289	Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv427860	chr10:38588021-38818835	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv895034	chr10:38632352-38743545	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv947859	chr10:38633447-38674546	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv2764202	chr10:38641508-39076221	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1048953	chr10:38645824-39074038	Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv428230	chr10:38652001-38818835	ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2804675	ZNF37A///ZNF37B	Cis_1M	lymphoblastoid	RTeQTL
rs2804675	HSD17B7///HSD17B7P2///LOC730412	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38645600-38660000	Weak transcription	Spleen	Spleen
2	chr10:38645600-38660200	Weak transcription	Aorta	Aorta
3	chr10:38645600-38661600	Weak transcription	Small Intestine	intestine
4	chr10:38645800-38660000	Weak transcription	Esophagus	oesophagus
5	chr10:38645800-38660000	Weak transcription	Gastric	stomach
6	chr10:38645800-38660000	Weak transcription	Pancreas	Pancrea
7	chr10:38645800-38661000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:38645800-38662200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr10:38645800-38662400	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr10:38645800-38669000	Weak transcription	Colon Smooth Muscle	Colon
11	chr10:38646000-38660000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr10:38646000-38660000	Weak transcription	Ovary	ovary
13	chr10:38646000-38661600	Weak transcription	Rectal Smooth Muscle	rectum
14	chr10:38646000-38661800	Weak transcription	HSMM	muscle
15	chr10:38646000-38662200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr10:38646000-38665200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr10:38646000-38670600	Weak transcription	Fetal Stomach	stomach
18	chr10:38646200-38660000	Weak transcription	Primary hematopoietic stem cells	blood
19	chr10:38646200-38660200	Weak transcription	Brain Anterior Caudate	brain
20	chr10:38646200-38662400	Weak transcription	Osteobl	bone
21	chr10:38646200-38667000	Weak transcription	Fetal Intestine Small	intestine
22	chr10:38646200-38669200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr10:38646200-38669200	Weak transcription	Right Ventricle	heart
24	chr10:38646400-38660200	Weak transcription	Brain Substantia Nigra	brain
25	chr10:38646400-38660200	Weak transcription	HSMMtube	muscle
26	chr10:38646400-38661000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr10:38646400-38661000	Weak transcription	Stomach Mucosa	stomach
28	chr10:38646400-38661600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr10:38646400-38661800	Weak transcription	Brain Angular Gyrus	brain
30	chr10:38646400-38661800	Weak transcription	Fetal Kidney	kidney
31	chr10:38646400-38662200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr10:38646400-38662200	Weak transcription	NHLF	lung
33	chr10:38646600-38662400	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr10:38646800-38661400	Weak transcription	NHEK	skin
35	chr10:38647000-38660200	Weak transcription	Fetal Brain Male	brain
36	chr10:38647600-38660000	Weak transcription	Fetal Brain Female	brain
37	chr10:38647800-38661200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr10:38648200-38660000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr10:38648200-38662000	Strong transcription	Liver	Liver
40	chr10:38648200-38668600	Weak transcription	HUVEC	blood vessel
41	chr10:38648400-38660000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr10:38650400-38661600	Strong transcription	Dnd41	blood
43	chr10:38651800-38659800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr10:38653000-38661000	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr10:38653000-38662000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr10:38653200-38660600	Strong transcription	HepG2	liver
47	chr10:38653200-38661200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr10:38653600-38661400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr10:38653800-38660600	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr10:38653800-38661000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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