Variant report

Variant	rs2570938
Chromosome Location	chr15:100167492-100167493
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	chr15:100156211..100158384-chr15:100167394..100168954,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1036320	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1108205	1.00[EUR][1000 genomes]
rs11247122	1.00[EUR][1000 genomes]
rs2570800	1.00[EUR][1000 genomes]
rs2570802	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570803	1.00[EUR][1000 genomes]
rs2570809	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570814	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570820	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570824	1.00[EUR][1000 genomes]
rs2570924	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570925	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570926	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570931	1.00[EUR][1000 genomes]
rs2570932	1.00[EUR][1000 genomes]
rs2570933	1.00[EUR][1000 genomes]
rs2570935	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2581463	1.00[EUR][1000 genomes]
rs2581473	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28661496	1.00[EUR][1000 genomes]
rs28747079	1.00[EUR][1000 genomes]
rs28816423	1.00[EUR][1000 genomes]
rs325385	1.00[EUR][1000 genomes]
rs325388	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs325399	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs325401	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs325407	1.00[EUR][1000 genomes]
rs7163764	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7170276	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7182926	1.00[EUR][1000 genomes]
rs8027544	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8040915	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh 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	36 gene(s)	inside rSNPs	diseases
4	nsv904558	chr15:100019382-100171684	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100142800-100176400	Weak transcription	Fetal Stomach	stomach
2	chr15:100144000-100180800	Weak transcription	Thymus	Thymus
3	chr15:100155200-100191000	Weak transcription	HSMMtube	muscle
4	chr15:100155400-100168400	Weak transcription	Stomach Mucosa	stomach
5	chr15:100155400-100170800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:100155400-100180800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr15:100156000-100170800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr15:100156000-100173200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr15:100158000-100171000	Weak transcription	Brain Anterior Caudate	brain
10	chr15:100159000-100253000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:100159400-100174600	Weak transcription	Brain Angular Gyrus	brain
12	chr15:100159600-100169400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr15:100159600-100170800	Weak transcription	Right Ventricle	heart
14	chr15:100159600-100174400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr15:100159600-100180600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr15:100159600-100181200	Weak transcription	Lung	lung
17	chr15:100159600-100200400	Weak transcription	Aorta	Aorta
18	chr15:100159800-100180800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr15:100160000-100167800	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:100160000-100170400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr15:100160200-100168600	Weak transcription	Brain Hippocampus Middle	brain
22	chr15:100160200-100171000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr15:100160600-100171200	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr15:100160800-100167800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr15:100160800-100168200	Weak transcription	Colon Smooth Muscle	Colon
26	chr15:100160800-100170800	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr15:100160800-100171400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr15:100160800-100172600	Weak transcription	Fetal Lung	lung
29	chr15:100160800-100215200	Weak transcription	Ovary	ovary
30	chr15:100161000-100167800	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr15:100161000-100168800	Weak transcription	Adipose Nuclei	Adipose
32	chr15:100161400-100169000	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr15:100161400-100170800	Weak transcription	Gastric	stomach
34	chr15:100162000-100170800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr15:100164400-100168600	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr15:100164400-100173800	Weak transcription	Fetal Thymus	thymus
37	chr15:100164400-100176600	Weak transcription	Fetal Intestine Small	intestine
38	chr15:100164800-100171000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr15:100165400-100170000	Weak transcription	Dnd41	blood
40	chr15:100165400-100170800	Weak transcription	Primary hematopoietic stem cells	blood
41	chr15:100166000-100168000	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr15:100166000-100168800	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr15:100166200-100167800	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr15:100166200-100168000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
45	chr15:100166200-100171000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr15:100166200-100175800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr15:100166400-100168000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr15:100166400-100168800	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr15:100166400-100174400	Weak transcription	Fetal Muscle Leg	muscle
50	chr15:100166600-100173000	Enhancers	Fetal Heart	heart

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