Variant report

Variant	rs11526176
Chromosome Location	chr7:27579773-27579774
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	chr7:27578194..27581554-chr7:27590667..27593383,3	K562	blood:

Extended variants
information (count: 137 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:135)

rs_ID	r²[population]
rs1005128	1.00[ASN][1000 genomes]
rs1009252	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1014373	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1015750	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1030003	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10447552	0.82[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs1052724	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1052741	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10807841	1.00[ASN][1000 genomes]
rs10951169	1.00[ASN][1000 genomes]
rs10951171	1.00[ASN][1000 genomes]
rs10951172	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10951175	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10951176	0.92[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1111647	1.00[ASN][1000 genomes]
rs11767188	1.00[ASN][1000 genomes]
rs12155430	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12164139	0.82[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs12530626	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12535844	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12537499	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12540276	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.95[TSI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12665991	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12667235	1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12667610	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12668430	1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12670415	0.93[ASN][1000 genomes]
rs12700813	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12700815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12700817	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12700819	0.90[ASN][1000 genomes]
rs12700822	0.90[ASN][1000 genomes]
rs12700826	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13226102	0.83[ASN][1000 genomes]
rs13227873	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13237776	1.00[JPT][hapmap]
rs13242248	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13244903	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13246464	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13308974	0.83[ASN][1000 genomes]
rs1357760	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1404276	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1404278	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1524526	0.90[ASN][1000 genomes]
rs1524530	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1524531	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1524532	1.00[ASN][1000 genomes]
rs1524533	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1554641	1.00[ASN][1000 genomes]
rs1608664	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17155546	1.00[JPT][hapmap]
rs1851911	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1851912	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1851913	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1880370	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1980329	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1986243	1.00[ASN][1000 genomes]
rs2041714	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2080245	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2080246	1.00[ASN][1000 genomes]
rs2091171	1.00[ASN][1000 genomes]
rs2098315	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2098316	1.00[ASN][1000 genomes]
rs2110526	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2110528	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2391443	1.00[ASN][1000 genomes]
rs2391452	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2391453	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs28416309	0.96[ASN][1000 genomes]
rs28429439	1.00[ASN][1000 genomes]
rs34886410	1.00[ASN][1000 genomes]
rs3847001	1.00[ASN][1000 genomes]
rs3925338	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4140899	1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs42085	0.88[GIH][hapmap];1.00[JPT][hapmap]
rs42099	1.00[JPT][hapmap]
rs4348389	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4719898	1.00[ASN][1000 genomes]
rs4719899	0.82[ASN][1000 genomes]
rs4719900	1.00[ASN][1000 genomes]
rs4719902	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4722719	1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4722724	0.82[CHB][hapmap];0.91[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap]
rs4722728	0.88[GIH][hapmap];1.00[JPT][hapmap]
rs6415251	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6462026	1.00[ASN][1000 genomes]
rs6462029	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6462031	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6462032	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6462034	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6462036	0.93[ASN][1000 genomes]
rs6462037	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6462038	1.00[JPT][hapmap]
rs6945993	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6946075	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6947731	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6948814	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6949496	1.00[ASN][1000 genomes]
rs6955074	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6956484	1.00[ASN][1000 genomes]
rs6957674	1.00[ASN][1000 genomes]
rs6958747	0.82[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs6959126	0.85[ASN][1000 genomes]
rs6959495	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6960834	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6961429	1.00[JPT][hapmap]
rs6963421	1.00[JPT][hapmap]
rs6963585	1.00[ASN][1000 genomes]
rs6964190	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6966918	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6970104	0.82[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs6974052	1.00[ASN][1000 genomes]
rs6974387	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6974932	0.82[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs6980382	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs723699	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs723700	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7455882	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs759269	1.00[ASN][1000 genomes]
rs7778320	0.96[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7779240	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7780431	1.00[ASN][1000 genomes]
rs7783447	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7789788	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7794292	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7806605	1.00[ASN][1000 genomes]
rs7806812	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7811436	0.93[ASN][1000 genomes]
rs940525	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs940526	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9639552	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9639553	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9639560	1.00[ASN][1000 genomes]
rs978447	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs986706	1.00[CHB][hapmap];1.00[JPT][hapmap]

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	nsv830930	chr7:27395838-27587355	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11526176	SCRN1	cis	cerebellum	SCAN
rs11526176	HIBADH	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27553200-27581000	Weak transcription	Fetal Heart	heart
2	chr7:27555800-27581000	Weak transcription	Gastric	stomach
3	chr7:27556000-27581600	Weak transcription	HMEC	breast
4	chr7:27556400-27584400	Weak transcription	NHEK	skin
5	chr7:27556400-27586400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr7:27558000-27579800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr7:27559400-27584200	Weak transcription	Pancreas	Pancrea
8	chr7:27559400-27627800	Weak transcription	Psoas Muscle	Psoas
9	chr7:27559800-27593000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr7:27561200-27580200	Weak transcription	Colon Smooth Muscle	Colon
11	chr7:27561200-27580600	Strong transcription	Liver	Liver
12	chr7:27561600-27583000	Weak transcription	Colonic Mucosa	Colon
13	chr7:27561800-27580200	Weak transcription	Fetal Stomach	stomach
14	chr7:27562400-27579800	Weak transcription	NH-A	brain
15	chr7:27562400-27581000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr7:27562400-27581000	Weak transcription	Spleen	Spleen
17	chr7:27563000-27580000	Weak transcription	Fetal Thymus	thymus
18	chr7:27563000-27581000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr7:27563200-27579800	Weak transcription	Brain Angular Gyrus	brain
20	chr7:27563400-27580800	Weak transcription	GM12878-XiMat	blood
21	chr7:27563400-27581800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr7:27564000-27580800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr7:27564200-27582000	Weak transcription	Stomach Mucosa	stomach
24	chr7:27564200-27585400	Weak transcription	Small Intestine	intestine
25	chr7:27565200-27581600	Weak transcription	Esophagus	oesophagus
26	chr7:27565600-27592200	Weak transcription	Brain Substantia Nigra	brain
27	chr7:27566000-27579800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr7:27566000-27580000	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr7:27566000-27580000	Weak transcription	Thymus	Thymus
30	chr7:27566000-27580200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr7:27566000-27580600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr7:27566000-27581000	Weak transcription	Brain Anterior Caudate	brain
33	chr7:27566000-27583800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr7:27566200-27579800	Weak transcription	Hela-S3	cervix
35	chr7:27566200-27580000	Weak transcription	K562	blood
36	chr7:27566800-27579800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr7:27566800-27593200	Weak transcription	Lung	lung
38	chr7:27567000-27580000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr7:27567200-27582800	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr7:27569000-27579800	Weak transcription	Brain Cingulate Gyrus	brain
41	chr7:27569000-27579800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr7:27569000-27579800	Weak transcription	Osteobl	bone
43	chr7:27569000-27580200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr7:27569400-27579800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr7:27569400-27580000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr7:27569400-27580000	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr7:27569400-27581000	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr7:27569400-27581000	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr7:27569600-27579800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr7:27569600-27580200	Weak transcription	Aorta	Aorta

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