Variant report

Variant	rs4887002
Chromosome Location	chr15:78365675-78365676
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:78362996..78365897-chr15:78366671..78369435,4	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1053506	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10775215	1.00[ASN][1000 genomes]
rs11072725	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11072726	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11633329	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11633569	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636889	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854102	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12595595	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12898535	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12900731	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901492	1.00[ASN][1000 genomes]
rs12913206	1.00[ASN][1000 genomes]
rs12915731	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12915847	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12916320	1.00[ASN][1000 genomes]
rs1348256	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17477813	0.80[AFR][1000 genomes]
rs1837911	1.00[ASN][1000 genomes]
rs1837912	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2015951	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2044100	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2867984	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28680277	1.00[ASN][1000 genomes]
rs3972617	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4243072	1.00[ASN][1000 genomes]
rs4243073	0.84[AFR][1000 genomes]
rs4316722	1.00[ASN][1000 genomes]
rs4411474	1.00[ASN][1000 genomes]
rs4886551	1.00[ASN][1000 genomes]
rs4886552	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886556	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886985	1.00[ASN][1000 genomes]
rs4886986	1.00[ASN][1000 genomes]
rs4886987	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886990	1.00[ASN][1000 genomes]
rs4886991	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886993	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886997	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886998	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4887001	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4887003	1.00[ASN][1000 genomes]
rs4887004	1.00[ASN][1000 genomes]
rs4997420	0.83[AFR][1000 genomes]
rs61732053	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163997	1.00[ASN][1000 genomes]
rs7169381	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7169882	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170101	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170286	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170452	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7175192	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7175235	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7175975	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8025423	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033216	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894295	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894296	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894302	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9788640	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920180	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78347400-78367800	Enhancers	Placenta	Placenta
2	chr15:78354200-78366400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr15:78354600-78366400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr15:78358400-78366000	Enhancers	HepG2	liver
5	chr15:78358800-78367800	Weak transcription	HMEC	breast
6	chr15:78361400-78367800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr15:78361400-78368000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:78361400-78368000	Weak transcription	Fetal Heart	heart
9	chr15:78361400-78368200	Weak transcription	Brain Germinal Matrix	brain
10	chr15:78361600-78369200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:78362000-78366000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr15:78362800-78368000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr15:78362800-78368000	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr15:78362800-78368000	Weak transcription	Esophagus	oesophagus
15	chr15:78362800-78369200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr15:78363000-78368000	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr15:78363000-78368000	Weak transcription	Primary B cells from peripheral blood	blood
18	chr15:78363200-78367200	Weak transcription	Stomach Mucosa	stomach
19	chr15:78363200-78368000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr15:78363400-78366200	Enhancers	Fetal Intestine Small	intestine
21	chr15:78363600-78366000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr15:78363600-78366200	Enhancers	HSMM	muscle
23	chr15:78363600-78366200	Enhancers	NHLF	lung
24	chr15:78363600-78367800	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr15:78363800-78366000	Enhancers	Primary hematopoietic stem cells	blood
26	chr15:78364000-78365800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr15:78364400-78365800	Enhancers	Fetal Kidney	kidney
28	chr15:78364600-78366000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:78364600-78366000	Enhancers	Brain Substantia Nigra	brain
30	chr15:78364600-78366000	Enhancers	Fetal Thymus	thymus
31	chr15:78364600-78366200	Enhancers	Fetal Muscle Leg	muscle
32	chr15:78364600-78366400	Weak transcription	Psoas Muscle	Psoas
33	chr15:78364600-78367200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr15:78364800-78366000	Weak transcription	Fetal Muscle Trunk	muscle
35	chr15:78364800-78367000	Weak transcription	HUVEC	blood vessel
36	chr15:78364800-78367800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr15:78365000-78365800	Enhancers	Fetal Lung	lung
38	chr15:78365000-78367800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr15:78365000-78368000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr15:78365000-78368000	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr15:78365000-78368000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:78365000-78368200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:78365200-78365800	Enhancers	Primary B cells from cord blood	blood
44	chr15:78365200-78366000	Enhancers	Colonic Mucosa	Colon
45	chr15:78365200-78366000	Enhancers	Fetal Brain Male	brain
46	chr15:78365200-78366000	Enhancers	HSMMtube	muscle
47	chr15:78365200-78366200	Enhancers	Primary T cells from cord blood	blood
48	chr15:78365200-78366800	Enhancers	Primary T cells fromperipheralblood	blood
49	chr15:78365200-78367000	Weak transcription	Left Ventricle	heart
50	chr15:78365200-78367000	Weak transcription	Hela-S3	cervix

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