Variant report

Variant	rs62559763
Chromosome Location	chr9:98770239-98770240
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	chr9:98769174..98772045-chr9:98801807..98803378,2	MCF-7	breast:
2	chr9:98769873..98772707-chr9:98776705..98779078,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10512243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1410297	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16910291	0.90[AMR][1000 genomes]
rs16910302	0.98[AMR][1000 genomes]
rs16910370	1.00[AMR][1000 genomes]
rs16910376	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16910382	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17303045	0.88[AMR][1000 genomes]
rs17304942	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17305138	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17305329	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17305917	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs17394582	0.90[AMR][1000 genomes]
rs17394881	0.98[AMR][1000 genomes]
rs17396240	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396338	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396553	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1972802	0.86[AMR][1000 genomes]
rs2149099	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2149100	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2176026	1.00[AMR][1000 genomes]
rs3802439	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4144585	1.00[AMR][1000 genomes]
rs55645821	0.84[EUR][1000 genomes]
rs55699149	0.90[AMR][1000 genomes]
rs55746108	0.90[AMR][1000 genomes]
rs55787215	0.87[EUR][1000 genomes]
rs55810950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55923424	0.90[AMR][1000 genomes]
rs55962207	0.83[AMR][1000 genomes]
rs55983886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56016781	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs56108623	0.98[AMR][1000 genomes]
rs56162045	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56217203	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56225283	0.84[EUR][1000 genomes]
rs56379566	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56678652	1.00[AMR][1000 genomes]
rs62559011	0.90[AMR][1000 genomes]
rs62559012	0.90[AMR][1000 genomes]
rs62559013	0.90[AMR][1000 genomes]
rs62559025	0.90[AMR][1000 genomes]
rs62559027	0.90[AMR][1000 genomes]
rs62559029	0.93[AMR][1000 genomes]
rs62559030	0.93[AMR][1000 genomes]
rs62559031	0.93[AMR][1000 genomes]
rs62559053	0.98[AMR][1000 genomes]
rs62559054	1.00[AMR][1000 genomes]
rs62559055	1.00[AMR][1000 genomes]
rs62559057	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62559058	0.98[AMR][1000 genomes]
rs62559059	1.00[AMR][1000 genomes]
rs62559760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62559762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559769	0.87[EUR][1000 genomes]
rs62559794	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs62559796	0.84[EUR][1000 genomes]
rs62562960	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562961	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562963	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562966	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562967	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562970	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562979	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562980	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562981	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562982	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562985	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562986	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562989	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562992	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73532684	0.82[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	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

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98706400-98777400	Weak transcription	Psoas Muscle	Psoas
2	chr9:98714000-98782600	Weak transcription	HUVEC	blood vessel
3	chr9:98719400-98771000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:98734600-98782400	Weak transcription	NHEK	skin
5	chr9:98735400-98778400	Weak transcription	Hela-S3	cervix
6	chr9:98735800-98770600	Weak transcription	K562	blood
7	chr9:98735800-98771200	Weak transcription	HepG2	liver
8	chr9:98736600-98778800	Weak transcription	Fetal Brain Male	brain
9	chr9:98741800-98778600	Weak transcription	NH-A	brain
10	chr9:98744800-98770800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr9:98744800-98771000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr9:98747800-98782800	Weak transcription	Fetal Kidney	kidney
13	chr9:98748000-98782600	Weak transcription	HMEC	breast
14	chr9:98748200-98771000	Weak transcription	Fetal Heart	heart
15	chr9:98748400-98770600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr9:98748400-98782800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr9:98748600-98781200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr9:98749400-98770800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr9:98750400-98771400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr9:98750400-98771400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:98750800-98771000	Weak transcription	A549	lung
22	chr9:98751600-98772600	Weak transcription	Small Intestine	intestine
23	chr9:98753400-98774200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr9:98753600-98774400	Weak transcription	Brain Anterior Caudate	brain
25	chr9:98757000-98770800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr9:98759000-98780200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:98761200-98770800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr9:98764000-98770600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr9:98765000-98775200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:98765000-98777600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr9:98765600-98771200	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr9:98765800-98781600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr9:98766400-98779800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr9:98766400-98780800	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr9:98766600-98771200	Strong transcription	Thymus	Thymus
36	chr9:98766600-98771400	Strong transcription	Stomach Smooth Muscle	stomach
37	chr9:98766600-98774600	Strong transcription	Primary B cells from peripheral blood	blood
38	chr9:98766600-98777400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr9:98766800-98770800	Strong transcription	Fetal Thymus	thymus
40	chr9:98766800-98771000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr9:98766800-98771400	Strong transcription	Duodenum Smooth Muscle	Duodenum
42	chr9:98766800-98773200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr9:98766800-98774000	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr9:98766800-98775400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr9:98766800-98776800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr9:98766800-98777000	Strong transcription	Fetal Muscle Leg	muscle
47	chr9:98766800-98777200	Strong transcription	Fetal Intestine Large	intestine
48	chr9:98767000-98770400	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr9:98767000-98774000	Strong transcription	Duodenum Mucosa	Duodenum
50	chr9:98767200-98770800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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