Variant report

Variant	rs12365551
Chromosome Location	chr11:58358368-58358369
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	chr11:58345474..58348191-chr11:58358091..58360760,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000110031	Chromatin interaction
ENSG00000186660	Chromatin interaction
ENSG00000255073	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11229438	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11229439	0.91[ASN][1000 genomes]
rs11229440	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11229479	0.94[ASN][1000 genomes]
rs11229532	1.00[ASN][1000 genomes]
rs11229535	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229537	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229544	1.00[ASN][1000 genomes]
rs11229552	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11541682	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12361887	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17473544	0.92[ASN][1000 genomes]
rs17489568	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17568220	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1800169	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1938601	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1944051	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2186381	0.94[EUR][1000 genomes]
rs2298607	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3829218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60767173	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60998298	0.97[ASN][1000 genomes]
rs7112350	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73470773	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73470778	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7481388	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7482383	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7484263	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7945889	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs948562	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:58347600-58360200	Weak transcription	Esophagus	oesophagus
2	chr11:58347600-58361400	Weak transcription	Gastric	stomach
3	chr11:58347600-58379600	Weak transcription	Pancreas	Pancrea
4	chr11:58347600-58379800	Weak transcription	Lung	lung
5	chr11:58347600-58380200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr11:58347800-58377200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr11:58347800-58380200	Weak transcription	Aorta	Aorta
8	chr11:58348200-58377400	Weak transcription	Fetal Kidney	kidney
9	chr11:58348600-58360200	Weak transcription	Stomach Mucosa	stomach
10	chr11:58349000-58359200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr11:58349000-58359800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr11:58349000-58360000	Weak transcription	Stomach Smooth Muscle	stomach
13	chr11:58349000-58360200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr11:58349200-58359200	Weak transcription	Fetal Muscle Leg	muscle
15	chr11:58349200-58359200	Weak transcription	Fetal Stomach	stomach
16	chr11:58349200-58360200	Weak transcription	Left Ventricle	heart
17	chr11:58349200-58363200	Weak transcription	Brain Germinal Matrix	brain
18	chr11:58349200-58377400	Weak transcription	HSMMtube	muscle
19	chr11:58349200-58379600	Weak transcription	Spleen	Spleen
20	chr11:58349200-58380600	Weak transcription	Fetal Brain Male	brain
21	chr11:58349200-58384200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr11:58349200-58384800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr11:58349400-58359200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr11:58349400-58360000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr11:58349400-58367600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr11:58349600-58360000	Weak transcription	Fetal Intestine Small	intestine
27	chr11:58349600-58360000	Weak transcription	Thymus	Thymus
28	chr11:58349600-58360200	Weak transcription	Fetal Heart	heart
29	chr11:58349600-58364200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr11:58349600-58368200	Weak transcription	Brain Anterior Caudate	brain
31	chr11:58349800-58359000	Weak transcription	NHLF	lung
32	chr11:58350200-58359200	Weak transcription	Small Intestine	intestine
33	chr11:58350800-58359000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr11:58351000-58360400	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr11:58351000-58361400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr11:58351000-58367800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr11:58351200-58378200	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr11:58351800-58360000	Weak transcription	Brain Cingulate Gyrus	brain
39	chr11:58352000-58368400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr11:58352400-58359800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr11:58352600-58360000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr11:58352600-58360200	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr11:58352600-58379600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr11:58352800-58359600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr11:58352800-58361800	Strong transcription	Dnd41	blood
46	chr11:58353400-58367600	Weak transcription	Hela-S3	cervix
47	chr11:58353600-58364400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr11:58354000-58359000	Weak transcription	Liver	Liver
49	chr11:58354000-58359200	Weak transcription	HUVEC	blood vessel
50	chr11:58354000-58359800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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