Variant report

Variant	rs200936
Chromosome Location	chr10:38134935-38134936
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:38133465..38135054-chr10:38145555..38147526,2	MCF-7	breast:
2	chr10:38134272..38136728-chr10:38290554..38293153,2	K562	blood:

Variant related genes	Relation type
ENSG00000198105	Chromatin interaction
ENSG00000236514	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1022698	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10764147	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10827835	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10827836	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11011343	0.83[ASN][1000 genomes]
rs11011351	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11011407	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1208559	0.89[ASN][1000 genomes]
rs1208592	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1208681	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1208684	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1208689	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1208708	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1208767	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12774732	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13503	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1735577	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1779017	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1814077	0.84[ASN][1000 genomes]
rs200903	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs200910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs200924	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs200935	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs200937	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200939	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs200943	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2144849	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2180408	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2257186	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2472150	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2504130	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2504155	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2505232	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2749592	0.82[JPT][hapmap]
rs289648	0.81[ASN][1000 genomes]
rs289649	0.84[ASN][1000 genomes]
rs3851078	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4934906	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934907	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934912	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934916	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs496627	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs527163	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs619739	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs623149	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs623454	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs626519	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs629577	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs639479	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs640774	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs645064	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs662945	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7069702	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7099777	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs719569	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9417256	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs200936	ZNF37A///ZNF37B	Cis_1M	lymphoblastoid	RTeQTL
rs200936	HSD17B7///HSD17B7P2///LOC730412	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38115600-38138200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr10:38116200-38137800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr10:38116600-38135800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
4	chr10:38123000-38144400	Weak transcription	NHEK	skin
5	chr10:38124000-38144400	Weak transcription	NH-A	brain
6	chr10:38125200-38144400	Weak transcription	Psoas Muscle	Psoas
7	chr10:38125600-38142800	Weak transcription	NHDF-Ad	bronchial
8	chr10:38125800-38143200	Weak transcription	HepG2	liver
9	chr10:38125800-38144400	Weak transcription	HMEC	breast
10	chr10:38126600-38145600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr10:38126800-38144800	Weak transcription	Thymus	Thymus
12	chr10:38127000-38135000	Weak transcription	Lung	lung
13	chr10:38127000-38135400	Weak transcription	Esophagus	oesophagus
14	chr10:38127000-38142800	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:38127000-38143600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr10:38127000-38143600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr10:38127000-38143800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr10:38127000-38144200	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr10:38127000-38144400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr10:38127000-38144400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr10:38127000-38144400	Weak transcription	HSMMtube	muscle
22	chr10:38127000-38144600	Weak transcription	K562	blood
23	chr10:38127000-38145200	Weak transcription	Gastric	stomach
24	chr10:38127000-38145600	Weak transcription	Colonic Mucosa	Colon
25	chr10:38127200-38135400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr10:38127200-38143000	Weak transcription	Brain Hippocampus Middle	brain
27	chr10:38127200-38144400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr10:38127200-38144400	Weak transcription	Osteobl	bone
29	chr10:38127200-38145800	Weak transcription	Placenta	Placenta
30	chr10:38127400-38142800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:38127400-38143000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr10:38127400-38143600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr10:38127400-38144000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr10:38127400-38144000	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr10:38127400-38144400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr10:38127400-38144400	Weak transcription	Rectal Smooth Muscle	rectum
37	chr10:38127600-38135000	Weak transcription	Stomach Smooth Muscle	stomach
38	chr10:38127600-38143400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr10:38127600-38143400	Weak transcription	Brain Anterior Caudate	brain
40	chr10:38127600-38145200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr10:38127800-38143400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr10:38128000-38135400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr10:38128000-38137600	Weak transcription	Brain Angular Gyrus	brain
44	chr10:38128000-38144400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr10:38128200-38135200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr10:38128200-38137000	Weak transcription	Pancreas	Pancrea
47	chr10:38128200-38143800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr10:38128200-38144400	Weak transcription	Left Ventricle	heart
49	chr10:38128400-38145000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr10:38128600-38137200	Weak transcription	Primary T cells from cord blood	blood

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