Variant report

Variant	rs7176881
Chromosome Location	chr15:40266836-40266837
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40160808..40162741-chr15:40264652..40267274,2	MCF-7	breast:
2	chr15:40224751..40226290-chr15:40266670..40268838,2	MCF-7	breast:
3	chr15:40261012..40264755-chr15:40266617..40269067,3	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12899649	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12912442	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13379817	0.87[YRI][hapmap]
rs17664969	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17665033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17720383	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17720451	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17720604	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.90[TSI][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17720724	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17720930	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17720964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17721122	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17721366	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34513040	0.81[EUR][1000 genomes]
rs35647585	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4923846	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56319775	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67654473	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72729460	0.90[AMR][1000 genomes];0.90[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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 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	chr15:40227200-40268400	Weak transcription	Esophagus	oesophagus
2	chr15:40227400-40283400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:40227800-40268400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:40228200-40323800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:40231000-40268400	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:40236600-40303000	Weak transcription	Small Intestine	intestine
7	chr15:40238000-40277800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr15:40238600-40268200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:40238600-40272200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr15:40238800-40273200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:40240800-40268000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr15:40241000-40268600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr15:40241200-40272600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:40249000-40304800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr15:40250000-40294800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr15:40250200-40299600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr15:40253000-40273200	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr15:40253000-40273800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr15:40253200-40273200	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr15:40254000-40268400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr15:40257200-40272200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr15:40257400-40268600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr15:40257800-40267800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr15:40258200-40268600	Weak transcription	Gastric	stomach
25	chr15:40260200-40268400	Weak transcription	Psoas Muscle	Psoas
26	chr15:40260200-40268600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr15:40260200-40268600	Weak transcription	Pancreas	Pancrea
28	chr15:40260400-40268200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr15:40260800-40268400	Weak transcription	Brain Angular Gyrus	brain
30	chr15:40260800-40268400	Weak transcription	Brain Germinal Matrix	brain
31	chr15:40260800-40268400	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr15:40260800-40303400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr15:40261000-40268400	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr15:40261000-40268400	Weak transcription	Brain Anterior Caudate	brain
35	chr15:40261000-40268400	Weak transcription	Colonic Mucosa	Colon
36	chr15:40261000-40268600	Weak transcription	Aorta	Aorta
37	chr15:40261000-40277800	Weak transcription	A549	lung
38	chr15:40261400-40268400	Weak transcription	Brain Cingulate Gyrus	brain
39	chr15:40261400-40268400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr15:40261400-40268400	Weak transcription	Fetal Brain Male	brain
41	chr15:40261600-40268400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr15:40262600-40267000	Weak transcription	Primary B cells from peripheral blood	blood
43	chr15:40262600-40267400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr15:40262600-40268400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr15:40262600-40268400	Strong transcription	Osteobl	bone
46	chr15:40262600-40293800	Weak transcription	Stomach Mucosa	stomach
47	chr15:40262800-40267600	Weak transcription	Rectal Smooth Muscle	rectum
48	chr15:40262800-40268400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr15:40263000-40268400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr15:40263400-40267800	Strong transcription	Primary B cells from cord blood	blood

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