Variant report

Variant	rs2804676
Chromosome Location	chr10:38660563-38660564
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]
rs2754358	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2754362	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2754369	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2754373	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2800475	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2800483	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2800542	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2804633	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2804634	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2804645	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9340228	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]

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
rs2804676	ZNF37A	Cis_1M	lymphoblastoid	RTeQTL
rs2804676	HSD17B7///HSD17B7P2///LOC730412	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38645600-38661600	Weak transcription	Small Intestine	intestine
2	chr10:38645800-38661000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr10:38645800-38662200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr10:38645800-38662400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr10:38645800-38669000	Weak transcription	Colon Smooth Muscle	Colon
6	chr10:38646000-38661600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr10:38646000-38661800	Weak transcription	HSMM	muscle
8	chr10:38646000-38662200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr10:38646000-38665200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:38646000-38670600	Weak transcription	Fetal Stomach	stomach
11	chr10:38646200-38662400	Weak transcription	Osteobl	bone
12	chr10:38646200-38667000	Weak transcription	Fetal Intestine Small	intestine
13	chr10:38646200-38669200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr10:38646200-38669200	Weak transcription	Right Ventricle	heart
15	chr10:38646400-38661000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr10:38646400-38661000	Weak transcription	Stomach Mucosa	stomach
17	chr10:38646400-38661600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:38646400-38661800	Weak transcription	Brain Angular Gyrus	brain
19	chr10:38646400-38661800	Weak transcription	Fetal Kidney	kidney
20	chr10:38646400-38662200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr10:38646400-38662200	Weak transcription	NHLF	lung
22	chr10:38646600-38662400	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr10:38646800-38661400	Weak transcription	NHEK	skin
24	chr10:38647800-38661200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr10:38648200-38662000	Strong transcription	Liver	Liver
26	chr10:38648200-38668600	Weak transcription	HUVEC	blood vessel
27	chr10:38650400-38661600	Strong transcription	Dnd41	blood
28	chr10:38653000-38661000	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr10:38653000-38662000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr10:38653200-38660600	Strong transcription	HepG2	liver
31	chr10:38653200-38661200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr10:38653600-38661400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr10:38653800-38660600	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr10:38653800-38661000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr10:38654400-38661200	Strong transcription	Primary monocytes fromperipheralblood	blood
36	chr10:38654400-38661200	Strong transcription	Duodenum Mucosa	Duodenum
37	chr10:38655400-38661800	Weak transcription	Brain Germinal Matrix	brain
38	chr10:38655400-38669000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr10:38656000-38668600	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr10:38656200-38669200	Weak transcription	Primary B cells from cord blood	blood
41	chr10:38656400-38662000	Weak transcription	A549	lung
42	chr10:38656400-38662200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr10:38656400-38668800	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr10:38656400-38670000	Weak transcription	Fetal Lung	lung
45	chr10:38656600-38670600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr10:38657600-38662800	Weak transcription	HMEC	breast
47	chr10:38657600-38668600	Weak transcription	Fetal Thymus	thymus
48	chr10:38658200-38661000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:38658200-38668400	Weak transcription	Placenta	Placenta
50	chr10:38658400-38661000	Strong transcription	Rectal Mucosa Donor 29	rectum

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