Variant report

Variant	rs932820
Chromosome Location	chr10:93941966-93941967
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	chr10:93941468..93943484-chr10:93946659..93948572,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10786036	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs10882029	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10882034	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882035	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10882036	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10882037	0.85[YRI][hapmap]
rs10882039	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10882043	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11186840	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11186848	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11186851	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];0.81[YRI][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186860	0.82[YRI][hapmap]
rs11186862	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11186869	0.86[ASN][1000 genomes]
rs11186872	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12246924	0.89[ASN][1000 genomes]
rs17107517	0.85[YRI][hapmap]
rs1711850	0.86[ASW][hapmap];0.83[LWK][hapmap];0.87[MKK][hapmap]
rs2011483	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2421831	0.85[YRI][hapmap]
rs3740302	0.86[ASN][1000 genomes]
rs3781230	0.85[YRI][hapmap]
rs56072007	0.87[ASN][1000 genomes]
rs57381242	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59386062	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66521023	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66882667	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7067935	0.85[YRI][hapmap]
rs7073372	0.89[ASN][1000 genomes]
rs7080101	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7080731	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7098170	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs730075	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7900400	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7917088	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs833364	0.81[ASW][hapmap]
rs833365	0.82[ASW][hapmap];0.80[LWK][hapmap]
rs833380	0.82[ASW][hapmap];0.83[MKK][hapmap]
rs9787608	0.85[YRI][hapmap]
rs9804247	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv975763	chr10:93822289-94105956	Enhancers Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs932820	TNKS2	cis	Thyroid	GTEx
rs932820	BTAF1	cis	cerebellum	SCAN

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93911800-93953200	Weak transcription	Pancreas	Pancrea
2	chr10:93926400-93976000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:93926600-93976000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr10:93926800-93942000	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr10:93926800-93982400	Weak transcription	HSMMtube	muscle
6	chr10:93927000-93947600	Weak transcription	Primary B cells from cord blood	blood
7	chr10:93927000-93963800	Weak transcription	Brain Angular Gyrus	brain
8	chr10:93927000-93966200	Weak transcription	Ovary	ovary
9	chr10:93927000-93970800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr10:93927200-93967600	Weak transcription	Adipose Nuclei	Adipose
11	chr10:93927200-93980400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr10:93927400-93960000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr10:93927400-93966600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr10:93927400-93970800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr10:93927400-93997800	Weak transcription	Fetal Intestine Large	intestine
16	chr10:93928600-93942600	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr10:93928800-93949000	Weak transcription	Liver	Liver
18	chr10:93929200-93984800	Weak transcription	Fetal Intestine Small	intestine
19	chr10:93929400-93967800	Weak transcription	Colon Smooth Muscle	Colon
20	chr10:93930000-93958200	Weak transcription	Hela-S3	cervix
21	chr10:93934200-93949400	Weak transcription	Lung	lung
22	chr10:93934200-93976200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr10:93936600-93958000	Weak transcription	Small Intestine	intestine
24	chr10:93937200-93946600	Weak transcription	GM12878-XiMat	blood
25	chr10:93937200-93950600	Weak transcription	HepG2	liver
26	chr10:93940200-93971200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr10:93940600-93944400	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr10:93940600-93945800	Weak transcription	Left Ventricle	heart
29	chr10:93940600-93946400	Weak transcription	Psoas Muscle	Psoas
30	chr10:93940600-93958400	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:93940600-93970800	Weak transcription	Fetal Stomach	stomach
32	chr10:93940800-93943400	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr10:93940800-93943400	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr10:93941400-93947800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr10:93941600-93942000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr10:93941600-93944800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr10:93941600-93947000	Weak transcription	Brain Substantia Nigra	brain
38	chr10:93941600-93948200	Weak transcription	Rectal Smooth Muscle	rectum
39	chr10:93941600-93958000	Weak transcription	Brain Anterior Caudate	brain
40	chr10:93941600-93958000	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr10:93941800-93944800	Weak transcription	Fetal Heart	heart
42	chr10:93941800-93944800	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr10:93941800-93958000	Weak transcription	Brain Hippocampus Middle	brain
44	chr10:93941800-93968000	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr10:93941800-93971200	Weak transcription	Primary B cells from peripheral blood	blood

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