Variant report

Variant	rs10502420
Chromosome Location	chr18:13433610-13433611
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:13216808..13220891-chr18:13433190..13435345,3	MCF-7	breast:
2	chr18:13433251..13440497-chr18:13536821..13545503,23	MCF-7	breast:
3	chr18:13432335..13435015-chr18:13446674..13449219,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168675	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12458775	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12965816	0.85[TSI][hapmap];0.88[EUR][1000 genomes]
rs7234210	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs7239579	0.85[CEU][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes]
rs7239707	1.00[CEU][hapmap];0.97[EUR][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	nsv531246	chr18:13298774-14082028	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv909411	chr18:13425604-13493554	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13417200-13439400	Weak transcription	Fetal Stomach	stomach
2	chr18:13417200-13447200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr18:13418400-13452200	Weak transcription	Colonic Mucosa	Colon
4	chr18:13421600-13435800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr18:13421600-13435800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr18:13421600-13437200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr18:13421600-13446600	Weak transcription	Gastric	stomach
8	chr18:13422400-13434400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr18:13425000-13436800	Weak transcription	Fetal Brain Female	brain
10	chr18:13425800-13435400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr18:13425800-13445200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr18:13426200-13439600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr18:13426200-13446200	Weak transcription	Esophagus	oesophagus
14	chr18:13426400-13434800	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr18:13426600-13435000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr18:13426600-13439600	Weak transcription	Duodenum Mucosa	Duodenum
17	chr18:13426600-13443800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr18:13426800-13433800	Weak transcription	Dnd41	blood
19	chr18:13426800-13435400	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr18:13427400-13441200	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr18:13427400-13447600	Weak transcription	Rectal Smooth Muscle	rectum
22	chr18:13427600-13435000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr18:13427600-13446600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr18:13427800-13434000	Weak transcription	Liver	Liver
25	chr18:13428400-13437800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr18:13428400-13446600	Weak transcription	Brain Angular Gyrus	brain
27	chr18:13428400-13448000	Weak transcription	Psoas Muscle	Psoas
28	chr18:13428600-13435400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr18:13428600-13437200	Weak transcription	Brain Hippocampus Middle	brain
30	chr18:13428600-13444800	Weak transcription	Adipose Nuclei	Adipose
31	chr18:13429200-13434000	Weak transcription	Left Ventricle	heart
32	chr18:13429200-13434800	Weak transcription	Right Ventricle	heart
33	chr18:13429200-13435000	Weak transcription	Brain Substantia Nigra	brain
34	chr18:13429200-13435000	Weak transcription	Right Atrium	heart
35	chr18:13429200-13437000	Weak transcription	Lung	lung
36	chr18:13430200-13435200	Weak transcription	Primary T cells from cord blood	blood
37	chr18:13430800-13436200	Weak transcription	Fetal Brain Male	brain
38	chr18:13431000-13438200	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr18:13431200-13435400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr18:13432200-13434800	Weak transcription	Aorta	Aorta
41	chr18:13432200-13435200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr18:13432200-13436800	Enhancers	Thymus	Thymus
43	chr18:13432200-13438000	Weak transcription	Pancreas	Pancrea
44	chr18:13432200-13439600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr18:13432600-13434800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr18:13432600-13435400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr18:13432600-13435800	Weak transcription	Brain Anterior Caudate	brain
48	chr18:13433000-13433800	Weak transcription	Fetal Thymus	thymus
49	chr18:13433000-13435000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr18:13433000-13435600	Enhancers	HUVEC	blood vessel

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