Variant report

Variant	rs7758659
Chromosome Location	chr6:15593240-15593241
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15592129..15594762-chr6:15602213..15604420,2	K562	blood:
2	chr6:15592181..15595081-chr6:15597021..15598867,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11756738	0.94[CEU][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13192791	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13198195	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs13198335	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13212086	0.86[CEU][hapmap];0.81[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13217513	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1988856	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2056942	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2619531	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2619551	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6903266	0.93[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6906100	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6918834	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6937379	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71533648	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs760665	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs760666	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7738263	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7745876	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7745907	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7760564	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7765924	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7768128	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs875462	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9296983	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9296986	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9383063	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9396593	0.82[ASW][hapmap];0.93[GIH][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9464796	1.00[CEU][hapmap];0.86[YRI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9476847	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428473	chr6:15522653-15595739	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv970324	chr6:15589492-15593264	Weak transcription Enhancers Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7758659	DEK	cis	parietal	SCAN

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15534400-15609800	Weak transcription	Thymus	Thymus
2	chr6:15563400-15604200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:15565800-15595800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:15567200-15593800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:15574000-15596800	Weak transcription	Fetal Intestine Small	intestine
6	chr6:15574800-15603600	Weak transcription	Primary B cells from peripheral blood	blood
7	chr6:15576000-15596200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:15578600-15596200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:15578800-15595800	Weak transcription	Aorta	Aorta
10	chr6:15581400-15595800	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr6:15585400-15609800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:15586200-15604600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:15587000-15602600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:15587000-15616200	Weak transcription	Pancreas	Pancrea
15	chr6:15587200-15593800	Weak transcription	Brain Anterior Caudate	brain
16	chr6:15587400-15595800	Weak transcription	Ovary	ovary
17	chr6:15587400-15602400	Weak transcription	K562	blood
18	chr6:15587400-15605200	Weak transcription	NHDF-Ad	bronchial
19	chr6:15589600-15595200	Weak transcription	Right Atrium	heart
20	chr6:15589800-15593800	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr6:15589800-15593800	Weak transcription	HSMMtube	muscle
22	chr6:15589800-15595200	Weak transcription	Lung	lung
23	chr6:15589800-15595800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:15589800-15596400	Weak transcription	Left Ventricle	heart
25	chr6:15589800-15596400	Weak transcription	Right Ventricle	heart
26	chr6:15589800-15610000	Weak transcription	GM12878-XiMat	blood
27	chr6:15589800-15614400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:15590000-15608400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:15590400-15610000	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr6:15590600-15596200	Weak transcription	Psoas Muscle	Psoas
31	chr6:15591800-15593600	Enhancers	Pancreatic Islets	Pancreatic Islet
32	chr6:15591800-15602200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:15592200-15597200	Enhancers	Fetal Heart	heart
34	chr6:15592400-15596600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:15592600-15593800	Enhancers	Primary T cells from cord blood	blood
36	chr6:15592600-15593800	Enhancers	Primary T helper naive cells from peripheral blood	blood
37	chr6:15592600-15594200	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr6:15592800-15593800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr6:15592800-15594000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr6:15592800-15594000	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr6:15593000-15594200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
42	chr6:15593000-15594200	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr6:15593000-15594400	Enhancers	Fetal Lung	lung
44	chr6:15593000-15596000	Weak transcription	Primary B cells from cord blood	blood
45	chr6:15593000-15596600	Weak transcription	Spleen	Spleen
46	chr6:15593000-15611000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:15593000-15613800	Weak transcription	Gastric	stomach
48	chr6:15593200-15593600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
49	chr6:15593200-15593600	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr6:15593200-15597600	Weak transcription	Dnd41	blood

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