Variant report

Variant	rs62557510
Chromosome Location	chr9:100205401-100205402
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100174263..100175948-chr9:100204138..100206094,2	MCF-7	breast:
2	chr9:100201448..100204015-chr9:100204331..100206716,3	MCF-7	breast:
3	chr9:100204721..100207514-chr9:100207516..100210040,3	MCF-7	breast:
4	chr9:100186507..100189058-chr9:100204188..100206282,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196116	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11999505	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12001521	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12002057	0.87[EUR][1000 genomes]
rs12003293	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12006001	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16920147	0.86[ASN][1000 genomes]
rs16920171	0.86[ASN][1000 genomes]
rs16920185	0.87[EUR][1000 genomes]
rs16920387	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16920392	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16920394	0.98[ASN][1000 genomes]
rs16920403	0.98[ASN][1000 genomes]
rs16920407	0.98[ASN][1000 genomes]
rs16920414	0.98[ASN][1000 genomes]
rs16920418	0.98[ASN][1000 genomes]
rs16920957	0.86[ASN][1000 genomes]
rs16920969	0.86[ASN][1000 genomes]
rs16921066	0.84[ASN][1000 genomes]
rs35600334	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4073032	0.88[ASN][1000 genomes]
rs41281938	0.87[EUR][1000 genomes]
rs58008468	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59749998	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59837265	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60023110	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61418045	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62557474	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62557475	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62557493	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62557494	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs62557495	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62557498	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs62557499	0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62557500	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62557501	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62557502	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs62557511	0.87[EUR][1000 genomes]
rs62557512	0.87[EUR][1000 genomes]
rs62557513	0.94[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs62557542	0.87[EUR][1000 genomes]
rs62557544	0.87[EUR][1000 genomes]
rs62557545	0.87[EUR][1000 genomes]
rs62557546	0.87[EUR][1000 genomes]
rs62557548	0.87[EUR][1000 genomes]
rs62557551	0.83[EUR][1000 genomes]
rs62557552	0.83[EUR][1000 genomes]
rs62557553	0.83[EUR][1000 genomes]
rs7024030	0.87[EUR][1000 genomes]
rs7044475	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7048438	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs732688	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs732689	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7853578	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7871235	0.87[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	nsv893609	chr9:100163998-100297592	Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100175400-100230800	Weak transcription	Psoas Muscle	Psoas
2	chr9:100175600-100245200	Weak transcription	Right Ventricle	heart
3	chr9:100182000-100215600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:100182000-100234200	Weak transcription	A549	lung
5	chr9:100182200-100236000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:100182200-100263400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr9:100182600-100208600	Weak transcription	HSMM	muscle
8	chr9:100188600-100205800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr9:100188800-100230600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr9:100189200-100213800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr9:100191800-100205800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr9:100193000-100227600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr9:100193200-100241400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr9:100194400-100225800	Weak transcription	Spleen	Spleen
15	chr9:100194600-100238200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr9:100194600-100248800	Weak transcription	Small Intestine	intestine
17	chr9:100194800-100209800	Weak transcription	HUVEC	blood vessel
18	chr9:100195400-100206600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr9:100195400-100227600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr9:100195400-100244600	Weak transcription	Colonic Mucosa	Colon
21	chr9:100195400-100259800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr9:100195800-100211600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr9:100196600-100206200	Weak transcription	Primary hematopoietic stem cells	blood
24	chr9:100196600-100227200	Weak transcription	Ovary	ovary
25	chr9:100196600-100228200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr9:100196800-100212400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr9:100196800-100227600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr9:100197200-100210200	Weak transcription	Stomach Smooth Muscle	stomach
29	chr9:100198000-100245200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr9:100199200-100205600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr9:100199800-100211200	Weak transcription	Pancreas	Pancrea
32	chr9:100200000-100235800	Weak transcription	NHDF-Ad	bronchial
33	chr9:100200400-100207000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr9:100201400-100211000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr9:100202200-100210200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr9:100202400-100227600	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr9:100202800-100207000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:100202800-100207200	Weak transcription	Gastric	stomach
39	chr9:100202800-100207200	Weak transcription	HepG2	liver
40	chr9:100202800-100209400	Weak transcription	Duodenum Mucosa	Duodenum
41	chr9:100202800-100227800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr9:100202800-100230800	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr9:100202800-100231200	Weak transcription	Brain Substantia Nigra	brain
44	chr9:100203000-100205800	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr9:100203000-100207200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr9:100203000-100209000	Weak transcription	GM12878-XiMat	blood
47	chr9:100203000-100210000	Weak transcription	Adipose Nuclei	Adipose
48	chr9:100203000-100210400	Weak transcription	Brain Hippocampus Middle	brain
49	chr9:100203000-100211200	Weak transcription	Liver	Liver
50	chr9:100203000-100211200	Weak transcription	Fetal Stomach	stomach

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