Variant report

Variant	rs356679
Chromosome Location	chr9:97960410-97960411
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	chr9:97935732..97938489-chr9:97958539..97960476,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10821450	0.81[AMR][1000 genomes]
rs171417	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs184818	0.85[AMR][1000 genomes]
rs187172	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs356666	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs356669	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs356673	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs356675	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs356677	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356678	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356680	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356682	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356683	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356684	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356687	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs356688	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs356689	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs416792	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs437511	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs526189	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs540412	0.89[AMR][1000 genomes]
rs565293	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs609324	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs656939	0.93[ASN][1000 genomes]
rs657637	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs944934	0.89[AMR][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	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
2	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97952600-97963200	Weak transcription	Spleen	Spleen
2	chr9:97952600-97969400	Weak transcription	Fetal Intestine Small	intestine
3	chr9:97953000-97961600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:97953000-97961600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr9:97956000-97963600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr9:97958800-97960600	Enhancers	Psoas Muscle	Psoas
7	chr9:97958800-97960800	Enhancers	Fetal Heart	heart
8	chr9:97958800-97961000	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr9:97958800-97968400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:97959000-97960600	Enhancers	Left Ventricle	heart
11	chr9:97959000-97961000	Enhancers	HSMMtube	muscle
12	chr9:97959000-97968400	Weak transcription	Fetal Intestine Large	intestine
13	chr9:97959200-97961200	Enhancers	HSMM	muscle
14	chr9:97959200-97962000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:97959400-97960600	Enhancers	Duodenum Smooth Muscle	Duodenum
16	chr9:97959400-97961000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:97959400-97961200	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr9:97959600-97960600	Enhancers	Gastric	stomach
19	chr9:97959600-97961000	Enhancers	NH-A	brain
20	chr9:97959600-97961200	Enhancers	HMEC	breast
21	chr9:97959600-97961200	Enhancers	Osteobl	bone
22	chr9:97959800-97961000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr9:97959800-97961000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr9:97959800-97961000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:97959800-97961000	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr9:97959800-97961000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr9:97959800-97961000	Enhancers	Fetal Muscle Leg	muscle
28	chr9:97959800-97961000	Enhancers	Right Atrium	heart
29	chr9:97959800-97961000	Enhancers	NHDF-Ad	bronchial
30	chr9:97959800-97961000	Enhancers	NHEK	skin
31	chr9:97959800-97961200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr9:97959800-97961200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr9:97960000-97960600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr9:97960000-97960600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr9:97960000-97960600	Enhancers	Brain Anterior Caudate	brain
36	chr9:97960000-97960800	Enhancers	NHLF	lung
37	chr9:97960000-97961800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr9:97960000-97964800	Enhancers	Fetal Stomach	stomach
39	chr9:97960200-97960600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr9:97960200-97960800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr9:97960200-97961000	Weak transcription	Ovary	ovary
42	chr9:97960200-97966600	Weak transcription	Lung	lung
43	chr9:97960400-97960600	Enhancers	Sigmoid Colon	Sigmoid Colon
44	chr9:97960400-97960800	Enhancers	Colon Smooth Muscle	Colon
45	chr9:97960400-97960800	Enhancers	Stomach Smooth Muscle	stomach
46	chr9:97960400-97961000	Enhancers	Muscle Satellite Cultured Cells	--
47	chr9:97960400-97961600	Weak transcription	Esophagus	oesophagus
48	chr9:97960400-97961600	Weak transcription	Pancreas	Pancrea
49	chr9:97960400-97961600	Weak transcription	Stomach Mucosa	stomach
50	chr9:97960400-97967000	Weak transcription	Aorta	Aorta

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