Variant report

Variant	rs1324637
Chromosome Location	chr10:27059608-27059609
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:27057270..27060234-chr10:27061073..27062883,2	K562	blood:
2	chr10:27057922..27061577-chr10:27062885..27066099,3	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1031858	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10741117	0.87[CEU][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10741119	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10741121	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10764638	0.92[CEU][hapmap];0.94[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10764639	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764643	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10829063	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10829064	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10829071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12221102	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1409130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1542553	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1543849	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1590445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1998631	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1998632	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1998634	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2031562	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.86[LWK][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2148110	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2182293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2368184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2368185	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3802612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3916988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4376804	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4747575	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4749185	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6482575	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7078119	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7078227	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7895417	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7895559	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7907630	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7915128	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[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	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1324637	LYZL2	cis	cerebellum	SCAN
rs1324637	WAC	cis	parietal	SCAN

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26988000-27069600	Weak transcription	Colon Smooth Muscle	Colon
2	chr10:27021600-27069600	Weak transcription	Esophagus	oesophagus
3	chr10:27023400-27070000	Weak transcription	Pancreas	Pancrea
4	chr10:27025600-27069600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:27025800-27068200	Weak transcription	Spleen	Spleen
6	chr10:27025800-27070800	Weak transcription	Aorta	Aorta
7	chr10:27026000-27069600	Weak transcription	Brain Angular Gyrus	brain
8	chr10:27027400-27069400	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:27027800-27069600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr10:27028200-27068600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:27028400-27069800	Weak transcription	NHLF	lung
12	chr10:27028600-27062200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr10:27029800-27069600	Weak transcription	HSMMtube	muscle
14	chr10:27032000-27068200	Weak transcription	Small Intestine	intestine
15	chr10:27032000-27069600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr10:27032400-27069400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr10:27032400-27069600	Weak transcription	Lung	lung
18	chr10:27032600-27069800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr10:27032800-27060600	Weak transcription	Brain Substantia Nigra	brain
20	chr10:27033200-27064000	Weak transcription	HepG2	liver
21	chr10:27033600-27069200	Weak transcription	Psoas Muscle	Psoas
22	chr10:27034000-27061800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr10:27034000-27069000	Weak transcription	Colonic Mucosa	Colon
24	chr10:27034000-27069600	Weak transcription	Ovary	ovary
25	chr10:27034000-27069800	Weak transcription	Stomach Smooth Muscle	stomach
26	chr10:27034400-27069600	Weak transcription	Right Ventricle	heart
27	chr10:27035600-27060400	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr10:27036800-27068400	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr10:27037400-27062200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr10:27040800-27060800	Weak transcription	Fetal Muscle Leg	muscle
31	chr10:27044800-27062600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr10:27044800-27064800	Weak transcription	HMEC	breast
33	chr10:27044800-27068000	Weak transcription	K562	blood
34	chr10:27044800-27068400	Weak transcription	A549	lung
35	chr10:27044800-27069000	Weak transcription	Brain Cingulate Gyrus	brain
36	chr10:27044800-27069600	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr10:27044800-27070400	Weak transcription	HUVEC	blood vessel
38	chr10:27044800-27082000	Weak transcription	Fetal Lung	lung
39	chr10:27046000-27065400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr10:27047200-27060200	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr10:27048200-27062000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr10:27048200-27069400	Weak transcription	NHDF-Ad	bronchial
43	chr10:27050600-27060000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr10:27050800-27060400	Strong transcription	Primary B cells from cord blood	blood
45	chr10:27051000-27059800	Strong transcription	Primary T helper cells PMA-I stimulated	--
46	chr10:27051200-27060200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr10:27051400-27059800	Strong transcription	Primary B cells from peripheral blood	blood
48	chr10:27051400-27082000	Weak transcription	Fetal Stomach	stomach
49	chr10:27051800-27059800	Strong transcription	Primary T cells from cord blood	blood
50	chr10:27052200-27059800	Weak transcription	Brain Anterior Caudate	brain

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