Variant report

Variant	rs16964555
Chromosome Location	chr15:52133777-52133778
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52131004..52134205-chr15:52136724..52139101,4	K562	blood:
2	chr15:52131973..52134112-chr20:52194712..52196799,2	MCF-7	breast:
3	chr15:52132428..52137559-chr15:52138263..52141048,4	MCF-7	breast:
4	chr15:52132092..52134106-chr15:52134200..52135846,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs16953082	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964486	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs16964488	1.00[CEU][hapmap]
rs16964505	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs16964506	1.00[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes]
rs16964507	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs16964508	1.00[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes]
rs16964510	0.90[EUR][1000 genomes]
rs16964518	0.90[EUR][1000 genomes]
rs16964528	0.88[EUR][1000 genomes]
rs16964532	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964561	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964579	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964585	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964596	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964639	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964645	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17705373	1.00[CEU][hapmap]
rs1991267	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2258248	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2414115	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2570232	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2570265	0.90[ASN][1000 genomes]
rs2593181	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2593184	0.90[ASN][1000 genomes]
rs2623256	0.84[EUR][1000 genomes]
rs2623291	0.90[ASN][1000 genomes]
rs2899478	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2959296	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3751595	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs3794529	0.83[EUR][1000 genomes]
rs4775971	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs4775988	1.00[YRI][hapmap]
rs56221158	0.88[EUR][1000 genomes]
rs7165594	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7167759	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7174616	1.00[CEU][hapmap]
rs7175121	1.00[CEU][hapmap]
rs7342575	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs74015757	0.81[EUR][1000 genomes]
rs74015761	0.81[EUR][1000 genomes]
rs8036648	0.85[EUR][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	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52123000-52134000	Weak transcription	Pancreas	Pancrea
2	chr15:52123600-52140000	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr15:52124200-52134600	Weak transcription	HSMM	muscle
4	chr15:52124200-52134800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:52124200-52135000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr15:52124200-52135000	Weak transcription	Aorta	Aorta
7	chr15:52124200-52135400	Weak transcription	Thymus	Thymus
8	chr15:52125000-52137600	Weak transcription	Lung	lung
9	chr15:52129000-52136000	Enhancers	Fetal Lung	lung
10	chr15:52129000-52136600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
11	chr15:52129000-52140200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr15:52129200-52139800	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr15:52129400-52140000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr15:52130000-52155000	Weak transcription	Fetal Muscle Trunk	muscle
15	chr15:52130200-52134400	Weak transcription	Brain Hippocampus Middle	brain
16	chr15:52130200-52134600	Weak transcription	Psoas Muscle	Psoas
17	chr15:52130200-52135000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr15:52130400-52134400	Weak transcription	NH-A	brain
19	chr15:52130400-52134600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr15:52130400-52134600	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr15:52130400-52134600	Weak transcription	HSMMtube	muscle
22	chr15:52130400-52134800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr15:52130400-52134800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr15:52130400-52134800	Weak transcription	Osteobl	bone
25	chr15:52130400-52135000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr15:52130400-52135000	Weak transcription	Brain Substantia Nigra	brain
27	chr15:52130400-52135200	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr15:52130400-52137000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr15:52130400-52137600	Weak transcription	Placenta	Placenta
30	chr15:52130600-52134800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr15:52130600-52134800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr15:52130600-52134800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr15:52130600-52135000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr15:52130600-52135600	Weak transcription	Brain Anterior Caudate	brain
35	chr15:52130600-52136200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
36	chr15:52130800-52133800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr15:52130800-52133800	Weak transcription	Right Ventricle	heart
38	chr15:52130800-52134000	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr15:52130800-52134200	Weak transcription	Duodenum Mucosa	Duodenum
40	chr15:52130800-52134200	Weak transcription	Fetal Heart	heart
41	chr15:52130800-52134400	Weak transcription	Liver	Liver
42	chr15:52130800-52134400	Weak transcription	Left Ventricle	heart
43	chr15:52130800-52134600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr15:52130800-52134600	Weak transcription	Fetal Muscle Leg	muscle
45	chr15:52130800-52134600	Weak transcription	NHLF	lung
46	chr15:52130800-52135000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:52130800-52135200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr15:52130800-52136400	Weak transcription	Stomach Smooth Muscle	stomach
49	chr15:52130800-52137400	Weak transcription	Esophagus	oesophagus
50	chr15:52130800-52137600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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