Variant report

Variant	rs62562988
Chromosome Location	chr9:98727035-98727036
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:98726229..98728206-chr9:98747751..98749981,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10512244	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16910396	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16910422	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16910436	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17305329	0.90[AFR][1000 genomes]
rs17396338	0.90[AFR][1000 genomes]
rs34191478	0.84[AFR][1000 genomes]
rs4743443	0.91[AMR][1000 genomes]
rs55645821	0.88[AFR][1000 genomes]
rs55787215	0.86[AFR][1000 genomes]
rs55936120	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56087522	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56225283	0.84[AFR][1000 genomes]
rs62559766	0.88[AFR][1000 genomes]
rs62559769	0.86[AFR][1000 genomes]
rs62563008	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
2	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
3	nsv1035723	chr9:98701628-98734356	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	2 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	chr9:98681800-98736600	Weak transcription	Colonic Mucosa	Colon
2	chr9:98686400-98743800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr9:98695800-98742400	Weak transcription	NHLF	lung
4	chr9:98705400-98734200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr9:98706400-98777400	Weak transcription	Psoas Muscle	Psoas
6	chr9:98706800-98734000	Weak transcription	Hela-S3	cervix
7	chr9:98709800-98727800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr9:98710000-98734200	Weak transcription	HMEC	breast
9	chr9:98710000-98735000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr9:98710400-98741400	Weak transcription	Brain Anterior Caudate	brain
11	chr9:98711000-98743400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr9:98714000-98782600	Weak transcription	HUVEC	blood vessel
13	chr9:98716600-98734400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr9:98718600-98729600	Weak transcription	NHDF-Ad	bronchial
15	chr9:98718800-98729400	Weak transcription	HepG2	liver
16	chr9:98719000-98733800	Weak transcription	NHEK	skin
17	chr9:98719000-98738600	Weak transcription	Aorta	Aorta
18	chr9:98719000-98743800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr9:98719000-98751400	Weak transcription	Stomach Mucosa	stomach
20	chr9:98719200-98728800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr9:98719200-98729200	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr9:98719200-98733600	Weak transcription	Fetal Intestine Large	intestine
23	chr9:98719200-98734200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr9:98719200-98734200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:98719200-98734200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr9:98719200-98734200	Weak transcription	Esophagus	oesophagus
27	chr9:98719200-98734200	Weak transcription	Lung	lung
28	chr9:98719200-98734200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr9:98719200-98734200	Weak transcription	Thymus	Thymus
30	chr9:98719200-98734200	Weak transcription	K562	blood
31	chr9:98719200-98734800	Weak transcription	Brain Hippocampus Middle	brain
32	chr9:98719200-98744000	Weak transcription	Brain Substantia Nigra	brain
33	chr9:98719200-98744400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr9:98719200-98749600	Weak transcription	Fetal Intestine Small	intestine
35	chr9:98719200-98749800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr9:98719200-98752800	Weak transcription	Pancreas	Pancrea
37	chr9:98719200-98764200	Weak transcription	Spleen	Spleen
38	chr9:98719200-98767800	Weak transcription	Rectal Smooth Muscle	rectum
39	chr9:98719400-98728600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr9:98719400-98728600	Weak transcription	Adipose Nuclei	Adipose
41	chr9:98719400-98731600	Weak transcription	Primary hematopoietic stem cells	blood
42	chr9:98719400-98731800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr9:98719400-98732800	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr9:98719400-98733800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:98719400-98733800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr9:98719400-98734200	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr9:98719400-98734200	Weak transcription	Duodenum Mucosa	Duodenum
48	chr9:98719400-98734200	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr9:98719400-98734800	Weak transcription	Fetal Kidney	kidney
50	chr9:98719400-98742800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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