Variant report

Variant	rs59180001
Chromosome Location	chr15:78859785-78859786
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:78858959..78860784-chr15:78863895..78865850,2	MCF-7	breast:
2	chr15:78799175..78801434-chr15:78856957..78860049,3	K562	blood:
3	chr15:78829726..78834442-chr15:78855710..78860360,8	K562	blood:
4	chr15:75743021..75745154-chr15:78857416..78860250,2	MCF-7	breast:
5	chr15:78831297..78836398-chr15:78856605..78860226,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188266	Chromatin interaction
ENSG00000268838	Chromatin interaction
ENSG00000169375	Chromatin interaction
ENSG00000041357	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10519205	0.89[AFR][1000 genomes]
rs11854548	1.00[AMR][1000 genomes]
rs1472739	0.98[AFR][1000 genomes]
rs16969922	1.00[AMR][1000 genomes]
rs16969931	1.00[AMR][1000 genomes]
rs16969948	0.98[AFR][1000 genomes]
rs16969949	0.98[AFR][1000 genomes]
rs1875869	0.98[AFR][1000 genomes]
rs1875870	0.98[AFR][1000 genomes]
rs1878398	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4380026	1.00[AMR][1000 genomes]
rs56928863	1.00[AMR][1000 genomes]
rs56976898	1.00[AMR][1000 genomes]
rs61545548	1.00[AMR][1000 genomes]
rs71581741	0.88[AFR][1000 genomes]
rs7163480	0.89[AFR][1000 genomes]
rs7165657	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7166003	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7174019	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7178897	0.98[AFR][1000 genomes]
rs7183983	0.89[AFR][1000 genomes]
rs73463030	1.00[AMR][1000 genomes]
rs73463038	1.00[AMR][1000 genomes]
rs73463040	1.00[AMR][1000 genomes]
rs73463050	1.00[AMR][1000 genomes]
rs73463060	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73463074	0.98[AFR][1000 genomes]
rs73463077	0.98[AFR][1000 genomes]
rs73463078	0.92[AFR][1000 genomes]
rs73463082	0.98[AFR][1000 genomes]
rs73463090	0.98[AFR][1000 genomes]
rs73463095	0.88[AFR][1000 genomes]
rs73465024	0.80[AFR][1000 genomes]
rs8029939	0.89[AFR][1000 genomes]
rs8043214	0.92[AFR][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	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv1038816	chr15:78796434-78881087	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78857600-78859800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr15:78857600-78860200	Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr15:78857600-78860200	Active TSS	iPS-20b Cell Line	embryonic stem cell
4	chr15:78857600-78860200	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr15:78857600-78860600	Active TSS	GM12878-XiMat	blood
6	chr15:78858800-78860200	Active TSS	Duodenum Mucosa	Duodenum
7	chr15:78859000-78859800	Weak transcription	Small Intestine	intestine
8	chr15:78859000-78868400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:78859200-78859800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:78859200-78859800	Enhancers	Dnd41	blood
11	chr15:78859200-78860000	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr15:78859200-78860000	Enhancers	Fetal Brain Female	brain
13	chr15:78859200-78860200	Weak transcription	Brain Germinal Matrix	brain
14	chr15:78859200-78860200	Enhancers	NHEK	skin
15	chr15:78859200-78882400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:78859400-78859800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:78859400-78859800	Weak transcription	K562	blood
18	chr15:78859400-78860000	Weak transcription	HepG2	liver
19	chr15:78859400-78860200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr15:78859400-78860200	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr15:78859400-78860200	Enhancers	Hela-S3	cervix
22	chr15:78859400-78860400	Enhancers	Primary hematopoietic stem cells	blood
23	chr15:78859400-78860400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr15:78859600-78859800	Active TSS	A549	lung
25	chr15:78859600-78860200	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr15:78859600-78861600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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