Variant report

Variant	rs7162027
Chromosome Location	chr15:92399657-92399658
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:92399066..92399852-chr15:92525323..92526129,3	MCF-7	breast:
2	chr15:92399350..92399861-chr15:92620433..92621256,2	MCF-7	breast:
3	chr15:92398900..92399766-chr15:92625069..92626058,4	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11852976	1.00[CEU][hapmap];0.82[TSI][hapmap];0.93[EUR][1000 genomes]
rs11858120	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11858157	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs12437622	0.86[ASN][1000 genomes]
rs12441552	0.86[ASN][1000 genomes]
rs12907294	1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28504271	0.93[EUR][1000 genomes]
rs28517863	0.93[EUR][1000 genomes]
rs28534923	0.94[EUR][1000 genomes]
rs28592114	0.96[EUR][1000 genomes]
rs4075845	1.00[CEU][hapmap];0.82[GIH][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7169208	1.00[CHB][hapmap]
rs7172169	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7173207	0.98[EUR][1000 genomes]
rs7179294	0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7162027	TTLL13	cis	parietal	SCAN
rs7162027	ISG20	cis	cerebellum	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92396000-92399800	Active TSS	Brain Angular Gyrus	brain
2	chr15:92396000-92399800	Active TSS	Brain Anterior Caudate	brain
3	chr15:92396200-92400400	Active TSS	Fetal Brain Female	brain
4	chr15:92397600-92400200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
5	chr15:92397600-92401200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
6	chr15:92397800-92399800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:92398000-92399800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr15:92398000-92401200	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr15:92398000-92408000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr15:92398000-92408400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr15:92398000-92408800	Weak transcription	Colon Smooth Muscle	Colon
12	chr15:92398000-92410000	Weak transcription	Gastric	stomach
13	chr15:92398200-92399800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
14	chr15:92398200-92400400	Weak transcription	Psoas Muscle	Psoas
15	chr15:92398200-92401400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr15:92398200-92401400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
17	chr15:92398200-92406400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:92398400-92400200	Weak transcription	Small Intestine	intestine
19	chr15:92398400-92400600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
20	chr15:92398400-92402200	Enhancers	Fetal Brain Male	brain
21	chr15:92398400-92405000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr15:92398600-92400600	Enhancers	Lung	lung
23	chr15:92398600-92400800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr15:92398600-92401800	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr15:92398600-92402200	Enhancers	Primary hematopoietic stem cells	blood
26	chr15:92398600-92402400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr15:92398600-92402400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr15:92398600-92402800	Weak transcription	NHLF	lung
29	chr15:92398600-92403200	Weak transcription	Osteobl	bone
30	chr15:92398800-92400000	Enhancers	HMEC	breast
31	chr15:92398800-92400200	Enhancers	Stomach Smooth Muscle	stomach
32	chr15:92398800-92400400	Flanking Active TSS	Fetal Heart	heart
33	chr15:92398800-92400600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr15:92398800-92400600	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr15:92398800-92400600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr15:92398800-92400600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr15:92398800-92400800	Enhancers	Primary T cells from cord blood	blood
38	chr15:92398800-92402200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
39	chr15:92398800-92402600	Enhancers	Primary hematopoietic stem cells short term culture	blood
40	chr15:92398800-92413400	Enhancers	Primary T helper cells fromperipheralblood	blood
41	chr15:92399000-92400200	Bivalent Enhancer	Primary B cells from cord blood	blood
42	chr15:92399000-92400800	Enhancers	Rectal Mucosa Donor 31	rectum
43	chr15:92399000-92407200	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr15:92399200-92399800	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr15:92399200-92400000	Enhancers	HUES6 Cell Line	embryonic stem cell
46	chr15:92399200-92400000	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr15:92399200-92400000	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr15:92399200-92400000	Enhancers	iPS-18 Cell Line	embryonic stem cell
49	chr15:92399200-92400000	Enhancers	iPS-20b Cell Line	embryonic stem cell
50	chr15:92399200-92400000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--

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