Variant report

Variant	rs55885377
Chromosome Location	chr10:90643114-90643115
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	chr10:90642477..90643245-chr8:124070790..124071448,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11202877	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11202878	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11202880	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11202881	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12248501	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12262249	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12264141	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12269097	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17113606	0.93[EUR][1000 genomes]
rs1887025	0.93[EUR][1000 genomes]
rs1926184	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1926185	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1926186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57063754	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57261011	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7076879	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74147302	0.90[ASN][1000 genomes]
rs74150105	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910708	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs952323	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv831942	chr10:90564697-90730352	Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90639800-90643200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr10:90639800-90643200	Active TSS	GM12878-XiMat	blood
3	chr10:90641000-90645400	Enhancers	Small Intestine	intestine
4	chr10:90641000-90646400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:90641000-90647200	Weak transcription	Spleen	Spleen
6	chr10:90641000-90653600	Weak transcription	Gastric	stomach
7	chr10:90641200-90643400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:90641400-90643200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr10:90641400-90644800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr10:90641400-90645200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr10:90641400-90646400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr10:90641400-90658600	Weak transcription	Brain Angular Gyrus	brain
13	chr10:90641600-90643800	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr10:90641600-90645800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr10:90641600-90646600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr10:90641600-90653200	Weak transcription	Colonic Mucosa	Colon
17	chr10:90641800-90646400	Weak transcription	Colon Smooth Muscle	Colon
18	chr10:90641800-90647400	Weak transcription	Ovary	ovary
19	chr10:90641800-90653800	Weak transcription	Stomach Mucosa	stomach
20	chr10:90641800-90656400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr10:90641800-90661800	Weak transcription	Thymus	Thymus
22	chr10:90642000-90646600	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr10:90642000-90648800	Enhancers	Primary B cells from peripheral blood	blood
24	chr10:90642000-90650400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
25	chr10:90642000-90651000	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr10:90642000-90684800	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr10:90642000-90686400	Weak transcription	Brain Cingulate Gyrus	brain
28	chr10:90642200-90644200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr10:90642200-90648000	Weak transcription	Fetal Muscle Leg	muscle
30	chr10:90642200-90648400	Enhancers	Primary T cells from cord blood	blood
31	chr10:90642200-90648800	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr10:90642200-90649800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr10:90642200-90656600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr10:90642400-90643200	Weak transcription	Brain Anterior Caudate	brain
35	chr10:90642400-90643600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr10:90642400-90643600	Enhancers	Rectal Mucosa Donor 31	rectum
37	chr10:90642400-90643600	Enhancers	HUVEC	blood vessel
38	chr10:90642400-90643800	Enhancers	Osteobl	bone
39	chr10:90642400-90644000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr10:90642400-90644200	Enhancers	HMEC	breast
41	chr10:90642400-90644200	Enhancers	HSMM	muscle
42	chr10:90642400-90644400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr10:90642400-90644400	Enhancers	Fetal Intestine Large	intestine
44	chr10:90642400-90644400	Enhancers	Fetal Lung	lung
45	chr10:90642400-90644400	Enhancers	NHEK	skin
46	chr10:90642400-90646400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr10:90642400-90647400	Weak transcription	Fetal Thymus	thymus
48	chr10:90642400-90648200	Weak transcription	Adipose Nuclei	Adipose
49	chr10:90642400-90651200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr10:90642400-90652000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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