Variant report

Variant	rs28504305
Chromosome Location	chr8:87390810-87390811
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	chr8:87387580..87389117-chr8:87389374..87392172,3	MCF-7	breast:
2	chr8:87390217..87391790-chr8:87396412..87399105,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10090107	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10099858	0.86[YRI][hapmap]
rs10100368	0.80[LWK][hapmap]
rs10101280	0.89[EUR][1000 genomes]
rs10101337	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10101658	0.88[EUR][1000 genomes]
rs10106735	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10107469	0.88[EUR][1000 genomes]
rs1054738	0.87[EUR][1000 genomes]
rs16907490	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16911667	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16912199	1.00[CEU][hapmap];0.90[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16914543	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28446298	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28593581	0.89[AFR][1000 genomes]
rs28801137	1.00[EUR][1000 genomes]
rs3916649	1.00[EUR][1000 genomes]
rs56280479	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60177164	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61661701	1.00[EUR][1000 genomes]
rs7012745	0.88[EUR][1000 genomes]
rs73254743	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73254771	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs73257062	0.88[EUR][1000 genomes]
rs73271003	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73273124	0.88[EUR][1000 genomes]
rs73688826	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7461904	0.88[EUR][1000 genomes]
rs7464360	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.88[EUR][1000 genomes]
rs7812422	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7839610	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7841007	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7841939	1.00[EUR][1000 genomes]
rs9656826	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932023	chr8:86845979-87490694	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	nsv429926	chr8:87161695-87429872	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	esv3349873	chr8:87185763-87603726	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	esv3360246	chr8:87200232-87419244	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:87355800-87405600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr8:87356800-87403800	Weak transcription	Aorta	Aorta
3	chr8:87357400-87403400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr8:87357800-87413600	Weak transcription	Pancreas	Pancrea
5	chr8:87363800-87393800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr8:87364000-87397400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr8:87366000-87398200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr8:87366800-87423800	Weak transcription	Colonic Mucosa	Colon
9	chr8:87373000-87394600	Weak transcription	Fetal Intestine Small	intestine
10	chr8:87375400-87397400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr8:87375600-87403000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr8:87378600-87402200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr8:87378600-87402200	Weak transcription	Spleen	Spleen
14	chr8:87378800-87403800	Weak transcription	Psoas Muscle	Psoas
15	chr8:87379600-87444000	Weak transcription	Brain Germinal Matrix	brain
16	chr8:87379800-87392800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr8:87379800-87403800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr8:87380400-87401800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr8:87380800-87403600	Weak transcription	Stomach Mucosa	stomach
20	chr8:87381000-87398800	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr8:87381000-87403600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr8:87381000-87404000	Weak transcription	Small Intestine	intestine
23	chr8:87381000-87430800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr8:87381200-87397600	Weak transcription	Fetal Heart	heart
25	chr8:87381200-87425600	Weak transcription	K562	blood
26	chr8:87381600-87395600	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr8:87381800-87396000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr8:87382400-87401800	Weak transcription	Lung	lung
29	chr8:87382400-87444000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr8:87382800-87399000	Weak transcription	Thymus	Thymus
31	chr8:87383000-87391200	Weak transcription	Brain Anterior Caudate	brain
32	chr8:87383000-87399000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr8:87383000-87403200	Weak transcription	Osteobl	bone
34	chr8:87383000-87406000	Weak transcription	HUVEC	blood vessel
35	chr8:87383000-87415000	Weak transcription	NHDF-Ad	bronchial
36	chr8:87383400-87404400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr8:87383600-87391200	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr8:87384600-87399000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr8:87385000-87398800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr8:87385000-87438000	Weak transcription	Fetal Brain Male	brain
41	chr8:87385200-87394600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr8:87385200-87395200	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr8:87385200-87398600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr8:87385400-87399000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr8:87385600-87399000	Weak transcription	Fetal Muscle Leg	muscle
46	chr8:87386000-87392400	Weak transcription	Brain Substantia Nigra	brain
47	chr8:87386000-87399000	Weak transcription	Gastric	stomach
48	chr8:87386000-87403800	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr8:87386200-87403600	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr8:87386400-87401200	Strong transcription	Placenta	Placenta

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