Variant report

Variant	rs11665438
Chromosome Location	chr18:13256821-13256822
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:13256760..13258434-chr18:13266130..13268754,2	MCF-7	breast:
2	chr18:13246292..13248526-chr18:13256215..13258308,3	MCF-7	breast:
3	chr18:13217260..13220397-chr18:13252163..13256866,5	MCF-7	breast:
4	chr18:13256588..13259291-chr18:13265389..13268353,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168675	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10445419	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10445429	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10445430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11080639	0.84[AFR][1000 genomes]
rs11659870	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11661574	0.89[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs11662617	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55809306	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6505792	0.83[ASN][1000 genomes]
rs9652933	0.95[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	nsv909408	chr18:13122618-13308950	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv909410	chr18:13151544-13308950	Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13223800-13259800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr18:13224000-13259800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr18:13224400-13259800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr18:13233000-13260200	Weak transcription	Colonic Mucosa	Colon
5	chr18:13233400-13259000	Weak transcription	Primary T cells from cord blood	blood
6	chr18:13236200-13258800	Weak transcription	Fetal Lung	lung
7	chr18:13237400-13258800	Weak transcription	Adipose Nuclei	Adipose
8	chr18:13237400-13258800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr18:13237800-13258800	Weak transcription	Colon Smooth Muscle	Colon
10	chr18:13243200-13260200	Weak transcription	Aorta	Aorta
11	chr18:13243600-13278200	Weak transcription	Dnd41	blood
12	chr18:13248400-13259800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr18:13252400-13257000	Enhancers	Fetal Heart	heart
14	chr18:13252600-13257000	Strong transcription	Thymus	Thymus
15	chr18:13253000-13267800	Weak transcription	Gastric	stomach
16	chr18:13253200-13257400	Weak transcription	Esophagus	oesophagus
17	chr18:13253200-13259000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr18:13253200-13259800	Weak transcription	Brain Substantia Nigra	brain
19	chr18:13253200-13260000	Weak transcription	Brain Angular Gyrus	brain
20	chr18:13253400-13257400	Weak transcription	Lung	lung
21	chr18:13253400-13258800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr18:13253600-13258800	Weak transcription	Brain Cingulate Gyrus	brain
23	chr18:13253600-13259000	Weak transcription	Brain Hippocampus Middle	brain
24	chr18:13254200-13259800	Weak transcription	Duodenum Mucosa	Duodenum
25	chr18:13254200-13260200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr18:13254400-13259000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr18:13254600-13258800	Weak transcription	Left Ventricle	heart
28	chr18:13254600-13259800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr18:13254600-13259800	Weak transcription	Small Intestine	intestine
30	chr18:13255400-13257200	Enhancers	Fetal Brain Female	brain
31	chr18:13255800-13257600	Enhancers	Brain Germinal Matrix	brain
32	chr18:13255800-13257600	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr18:13255800-13258800	Weak transcription	Fetal Thymus	thymus
34	chr18:13256000-13257000	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr18:13256000-13257000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr18:13256000-13258200	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr18:13256200-13257000	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr18:13256200-13257200	Enhancers	H1 Cell Line	embryonic stem cell
39	chr18:13256200-13257600	Enhancers	Psoas Muscle	Psoas
40	chr18:13256200-13262400	Enhancers	Brain Anterior Caudate	brain
41	chr18:13256400-13257000	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr18:13256400-13257000	Enhancers	Fetal Muscle Leg	muscle
43	chr18:13256400-13259000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr18:13256600-13257000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr18:13256600-13257600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
46	chr18:13256600-13258000	Enhancers	Right Atrium	heart
47	chr18:13256600-13258200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr18:13256800-13257400	Weak transcription	Right Ventricle	heart
49	chr18:13256800-13258600	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr18:13256800-13268400	Weak transcription	H9 Cell Line	embryonic stem cell

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