Variant report

Variant	rs12356559
Chromosome Location	chr10:99052164-99052165
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99050912..99053751-chr10:99091766..99095025,5	MCF-7	breast:
2	chr10:99049975..99053832-chr10:99093402..99096465,5	K562	blood:
3	chr10:99048545..99053546-chr10:99092341..99096465,6	K562	blood:
4	chr10:99050343..99055587-chr10:99077475..99082102,7	MCF-7	breast:
5	chr10:99051058..99054984-chr10:99078319..99082092,7	MCF-7	breast:
6	chr10:99051863..99052445-chr4:76439211..76440158,2	HCT-116	colon:
7	chr10:99051571..99052405-chr19:12273845..12274393,2	Hela-S3	cervix:
8	chr10:99051582..99055310-chr10:99077169..99083058,6	K562	blood:
9	chr10:99051546..99052354-chr2:55843946..55844595,2	Hela-S3	cervix:
10	chr10:99050766..99052270-chr10:99085293..99087979,2	MCF-7	breast:
11	chr10:99051582..99054067-chr10:99077169..99079188,3	K562	blood:
12	chr10:99051045..99053385-chr10:99092824..99094336,2	MCF-7	breast:
13	chr10:99051532..99052217-chr11:65270337..65271200,2	Hela-S3	cervix:
14	chr10:99050735..99053520-chr16:284621..286236,2	MCF-7	breast:
15	chr10:99051590..99052388-chr10:101380641..101381344,2	Hela-S3	cervix:
16	chr10:99052064..99052648-chr10:99078773..99079491,2	NB4	blood:

No data

Variant related genes	Relation type
ENSG00000165879	Chromatin interaction
ENSG00000174796	Chromatin interaction
ENSG00000163743	Chromatin interaction
ENSG00000167930	Chromatin interaction
ENSG00000181274	Chromatin interaction
ENSG00000260475	Chromatin interaction
ENSG00000196646	Chromatin interaction
ENSG00000225850	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10509713	0.93[AMR][1000 genomes]
rs11189064	0.87[AMR][1000 genomes]
rs11189065	0.87[AMR][1000 genomes]
rs11189066	0.87[AMR][1000 genomes]
rs11189067	0.87[AMR][1000 genomes]
rs11189072	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189073	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189074	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189076	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189077	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189078	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189080	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189081	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189084	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189086	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189087	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189090	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189092	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189093	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189095	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189096	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11189106	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189107	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189109	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189117	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189118	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189125	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189129	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189136	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11189140	0.87[AMR][1000 genomes]
rs11189141	0.87[AMR][1000 genomes]
rs11189143	0.87[AMR][1000 genomes]
rs11189145	0.93[AMR][1000 genomes]
rs11189146	0.93[AMR][1000 genomes]
rs11189148	0.93[AMR][1000 genomes]
rs11189149	0.93[AMR][1000 genomes]
rs11189158	0.93[AMR][1000 genomes]
rs11189162	0.87[AMR][1000 genomes]
rs11189166	0.93[AMR][1000 genomes]
rs11189170	0.93[AMR][1000 genomes]
rs12355279	0.93[AMR][1000 genomes]
rs12355311	0.87[AMR][1000 genomes]
rs12355523	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12355526	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356648	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356909	0.87[AMR][1000 genomes]
rs12358104	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358267	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358452	0.87[AMR][1000 genomes]
rs12358777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359143	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359467	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12359643	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359654	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12360528	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1414742	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1810982	0.87[AMR][1000 genomes]
rs1970191	0.93[AMR][1000 genomes]
rs1970454	0.93[AMR][1000 genomes]
rs41284270	0.93[AMR][1000 genomes]
rs45527941	0.93[AMR][1000 genomes]
rs7917149	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs884450	0.93[AMR][1000 genomes]
rs9645543	0.87[AMR][1000 genomes]
rs9645559	0.87[AMR][1000 genomes]
rs9645560	0.87[AMR][1000 genomes]
rs9645561	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1041614	chr10:98928281-99083056	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	nsv7507	chr10:99031233-99070690	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv975787	chr10:99048466-99061224	Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99050200-99052800	Active TSS	K562	blood
2	chr10:99050800-99052400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:99050800-99052800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr10:99050800-99052800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr10:99050800-99052800	Active TSS	GM12878-XiMat	blood
6	chr10:99051000-99052400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
7	chr10:99051000-99052600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr10:99051000-99052600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:99051000-99052600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr10:99051000-99052600	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr10:99051000-99052800	Active TSS	ES-I3 Cell Line	embryonic stem cell
12	chr10:99051000-99052800	Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr10:99051000-99052800	Active TSS	HSMM	muscle
14	chr10:99051200-99052200	Flanking Active TSS	Primary hematopoietic stem cells	blood
15	chr10:99051200-99052400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr10:99051200-99052400	Active TSS	HUES48 Cell Line	embryonic stem cell
17	chr10:99051200-99052400	Active TSS	iPS-15b Cell Line	embryonic stem cell
18	chr10:99051200-99052400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr10:99051200-99052400	Active TSS	Brain Inferior Temporal Lobe	brain
20	chr10:99051200-99052400	Active TSS	Colonic Mucosa	Colon
21	chr10:99051200-99052400	Active TSS	Esophagus	oesophagus
22	chr10:99051200-99052400	Active TSS	Pancreatic Islets	Pancreatic Islet
23	chr10:99051200-99052600	Active TSS	H1 Cell Line	embryonic stem cell
24	chr10:99051200-99052600	Active TSS	H9 Cell Line	embryonic stem cell
25	chr10:99051200-99052600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:99051200-99052600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr10:99051200-99052600	Active TSS	iPS-18 Cell Line	embryonic stem cell
28	chr10:99051200-99052600	Active TSS	NH-A	brain
29	chr10:99051200-99052800	Active TSS	HUES64 Cell Line	embryonic stem cell
30	chr10:99051200-99052800	Active TSS	iPS-20b Cell Line	embryonic stem cell
31	chr10:99051200-99052800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr10:99051200-99052800	Active TSS	Stomach Smooth Muscle	stomach
33	chr10:99051200-99052800	Active TSS	A549	lung
34	chr10:99051200-99052800	Active TSS	NHDF-Ad	bronchial
35	chr10:99051200-99052800	Active TSS	NHLF	lung
36	chr10:99051400-99052400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr10:99051400-99052400	Active TSS	Aorta	Aorta
38	chr10:99051400-99052400	Active TSS	Fetal Brain Male	brain
39	chr10:99051400-99052400	Active TSS	Fetal Intestine Large	intestine
40	chr10:99051400-99052400	Active TSS	Right Ventricle	heart
41	chr10:99051400-99052400	Active TSS	Small Intestine	intestine
42	chr10:99051400-99052600	Active TSS	Cortex derived primary cultured neurospheres	brain
43	chr10:99051400-99052600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr10:99051400-99052600	Active TSS	Fetal Intestine Small	intestine
45	chr10:99051400-99052600	Active TSS	Fetal Muscle Trunk	muscle
46	chr10:99051400-99052600	Active TSS	Fetal Thymus	thymus
47	chr10:99051400-99052800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr10:99051400-99052800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr10:99051400-99052800	Active TSS	Right Atrium	heart
50	chr10:99051600-99052400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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