Variant report

Variant	rs11662171
Chromosome Location	chr18:39694428-39694429
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:39694318..39694934-chr18:40851655..40852415,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000132872	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11659568	0.85[EUR][1000 genomes]
rs11660388	0.85[EUR][1000 genomes]
rs11660513	0.85[EUR][1000 genomes]
rs12327365	0.85[EUR][1000 genomes]
rs12709716	0.80[EUR][1000 genomes]
rs12954202	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1557419	0.85[EUR][1000 genomes]
rs2096896	0.86[EUR][1000 genomes]
rs2096897	0.86[EUR][1000 genomes]
rs2105680	0.86[EUR][1000 genomes]
rs3932738	0.86[EUR][1000 genomes]
rs3932739	0.86[EUR][1000 genomes]
rs4121647	0.82[ASN][1000 genomes]
rs4121811	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4890222	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs514227	0.81[EUR][1000 genomes]
rs536139	0.85[EUR][1000 genomes]
rs584380	0.91[EUR][1000 genomes]
rs681048	0.92[EUR][1000 genomes]
rs7237998	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs948871	0.83[EUR][1000 genomes]
rs948872	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949609	chr18:39126941-40070286	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv431979	chr18:39255558-39696452	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv34153	chr18:39398768-39872265	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv909568	chr18:39491873-39768746	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1057988	chr18:39618253-39713904	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv1065792	chr18:39619676-39711798	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
7	nsv1057790	chr18:39621947-39705550	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	esv2762006	chr18:39621947-39713916	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
9	nsv1063952	chr18:39621947-39718600	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
10	nsv1064973	chr18:39623604-39711798	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
11	nsv833631	chr18:39633503-39824091	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv1063205	chr18:39678456-39741061	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
13	nsv1060346	chr18:39678456-39742702	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
14	nsv1067132	chr18:39691269-39808287	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
15	nsv543687	chr18:39691269-39808287	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:39692200-39695600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr18:39692600-39694800	Enhancers	Fetal Intestine Small	intestine
3	chr18:39692800-39694800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr18:39693000-39695000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr18:39693200-39694800	Enhancers	Dnd41	blood
6	chr18:39693400-39694600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr18:39693400-39694600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr18:39693400-39694800	Enhancers	Colon Smooth Muscle	Colon
9	chr18:39693400-39694800	Enhancers	Fetal Intestine Large	intestine
10	chr18:39693400-39694800	Enhancers	Osteobl	bone
11	chr18:39693600-39694600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr18:39693600-39694800	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr18:39693800-39694600	Enhancers	Primary T cells fromperipheralblood	blood
14	chr18:39693800-39694600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr18:39693800-39694600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr18:39693800-39694600	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr18:39693800-39694600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
18	chr18:39693800-39694600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
19	chr18:39693800-39694600	Weak transcription	Fetal Brain Female	brain
20	chr18:39693800-39694800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr18:39693800-39694800	Enhancers	Adipose Nuclei	Adipose
22	chr18:39693800-39694800	Enhancers	Liver	Liver
23	chr18:39693800-39694800	Enhancers	Brain Hippocampus Middle	brain
24	chr18:39693800-39695000	Enhancers	Brain Substantia Nigra	brain
25	chr18:39694000-39694600	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr18:39694000-39694600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr18:39694000-39694800	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr18:39694000-39694800	Enhancers	Primary T killer memory cells from peripheral blood	blood
29	chr18:39694000-39694800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr18:39694000-39695000	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr18:39694200-39694600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
32	chr18:39694200-39694600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr18:39694200-39694600	Enhancers	GM12878-XiMat	blood
34	chr18:39694200-39694800	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr18:39694200-39694800	Enhancers	Fetal Brain Male	brain
36	chr18:39694200-39694800	Enhancers	Fetal Heart	heart
37	chr18:39694200-39694800	Bivalent Enhancer	HUVEC	blood vessel
38	chr18:39694400-39694800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr18:39694400-39694800	Active TSS	Stomach Smooth Muscle	stomach

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