Variant report

Variant	rs16879239
Chromosome Location	chr8:110240169-110240170
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:110238617..110240882-chr8:110264919..110266571,2	MCF-7	breast:
2	chr8:109931267..109933961-chr8:110239914..110241556,2	MCF-7	breast:
3	chr8:110144829..110147238-chr8:110238883..110241671,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs16879247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16879267	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16879294	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16879299	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16879374	1.00[AMR][1000 genomes]
rs1870390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58174582	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58370875	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59199171	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59651628	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60279960	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60417655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60584579	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61706619	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73700814	1.00[AMR][1000 genomes]
rs73700815	1.00[AMR][1000 genomes]
rs73700826	1.00[AMR][1000 genomes]
rs73700827	1.00[AMR][1000 genomes]
rs73700828	1.00[AMR][1000 genomes]
rs73700831	1.00[AMR][1000 genomes]
rs73700837	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73700840	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73700846	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73700849	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73700852	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73700853	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023204	chr8:110169573-110303085	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1031663	chr8:110177432-110303085	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv891272	chr8:110217266-110268104	Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv891273	chr8:110219735-110475874	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv891274	chr8:110224047-110308776	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv891275	chr8:110224047-110319234	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv891276	chr8:110232329-110308776	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:110211200-110311600	Weak transcription	Right Ventricle	heart
2	chr8:110225800-110241800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr8:110230400-110241000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr8:110231800-110242200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr8:110234200-110241200	Weak transcription	HUVEC	blood vessel
6	chr8:110234600-110240400	Weak transcription	HMEC	breast
7	chr8:110234800-110264200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr8:110235000-110240600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr8:110235000-110251000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr8:110235200-110241400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr8:110235400-110271400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr8:110235400-110275000	Weak transcription	Fetal Brain Male	brain
13	chr8:110235600-110244000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr8:110235800-110240400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr8:110235800-110241000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr8:110235800-110251200	Weak transcription	Fetal Intestine Large	intestine
17	chr8:110235800-110252600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr8:110236000-110264200	Weak transcription	Spleen	Spleen
19	chr8:110236000-110265400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr8:110236200-110241000	Weak transcription	NH-A	brain
21	chr8:110236200-110244200	Weak transcription	Fetal Stomach	stomach
22	chr8:110236200-110264200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr8:110236200-110308800	Weak transcription	Thymus	Thymus
24	chr8:110236200-110309200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr8:110236400-110240600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr8:110236400-110241200	Weak transcription	NHDF-Ad	bronchial
27	chr8:110236400-110257400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr8:110236600-110240600	Weak transcription	Brain Germinal Matrix	brain
29	chr8:110236600-110244000	Weak transcription	Brain Angular Gyrus	brain
30	chr8:110236600-110245400	Weak transcription	Rectal Smooth Muscle	rectum
31	chr8:110236600-110251200	Weak transcription	GM12878-XiMat	blood
32	chr8:110236600-110264200	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr8:110236600-110344200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr8:110237000-110283800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr8:110237200-110271400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr8:110237400-110241200	Weak transcription	Osteobl	bone
37	chr8:110237400-110241600	Strong transcription	Primary T cells from cord blood	blood
38	chr8:110237600-110250800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr8:110237600-110259200	Weak transcription	Brain Anterior Caudate	brain
40	chr8:110237800-110241200	Weak transcription	HSMMtube	muscle
41	chr8:110237800-110254200	Weak transcription	Fetal Thymus	thymus
42	chr8:110237800-110254200	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr8:110237800-110254800	Weak transcription	Monocytes-CD14+_RO01746	blood
44	chr8:110237800-110264200	Weak transcription	Fetal Lung	lung
45	chr8:110237800-110271400	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr8:110238000-110241400	Weak transcription	NHLF	lung
47	chr8:110238000-110244000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr8:110238000-110311600	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr8:110238200-110240400	Weak transcription	HepG2	liver
50	chr8:110238200-110241000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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