Variant report

Variant	rs642680
Chromosome Location	chr18:25658242-25658243
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	chr18:25658211..25660903-chr18:25672408..25674979,2	MCF-7	breast:

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs641876	0.82[YRI][hapmap]
rs655461	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs660656	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs671798	1.00[YRI][hapmap];0.82[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25646200-25666400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr18:25649600-25661400	Enhancers	Fetal Heart	heart
3	chr18:25650600-25666800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr18:25651200-25661800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr18:25651600-25665200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr18:25652400-25659600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr18:25652400-25659600	Weak transcription	Right Atrium	heart
8	chr18:25652600-25659600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr18:25652600-25661800	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr18:25652600-25663800	Weak transcription	Right Ventricle	heart
11	chr18:25654000-25666000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr18:25654400-25660000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr18:25655600-25659600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr18:25655600-25660800	Weak transcription	Left Ventricle	heart
15	chr18:25655800-25659800	Weak transcription	Brain Germinal Matrix	brain
16	chr18:25655800-25660800	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr18:25655800-25690800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr18:25656000-25659600	Weak transcription	HSMM	muscle
19	chr18:25656200-25658400	Weak transcription	HepG2	liver
20	chr18:25656200-25663000	Weak transcription	Brain Angular Gyrus	brain
21	chr18:25656200-25663000	Weak transcription	Brain Anterior Caudate	brain
22	chr18:25656400-25662600	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr18:25656800-25658600	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr18:25657200-25663800	Weak transcription	Brain Hippocampus Middle	brain
25	chr18:25657200-25666800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr18:25657400-25658400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr18:25657400-25658400	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr18:25657400-25658400	Weak transcription	Brain Cingulate Gyrus	brain
29	chr18:25657400-25658600	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr18:25657400-25658800	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr18:25657400-25659000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr18:25657400-25659000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr18:25657400-25663200	Weak transcription	Brain Substantia Nigra	brain
34	chr18:25657600-25658800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr18:25657600-25660200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr18:25657800-25666000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr18:25658000-25659000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr18:25658000-25659000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
39	chr18:25658000-25659200	Flanking Active TSS	A549	lung
40	chr18:25658000-25660400	Enhancers	NH-A	brain
41	chr18:25658200-25658600	Enhancers	Fetal Brain Female	brain
42	chr18:25658200-25658800	Enhancers	HSMMtube	muscle
43	chr18:25658200-25659000	Enhancers	Fetal Intestine Large	intestine
44	chr18:25658200-25659200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr18:25658200-25660200	Enhancers	Osteobl	bone
46	chr18:25658200-25661000	Enhancers	Placenta Amnion	Placenta Amnion
47	chr18:25658200-25661400	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr18:25658200-25662000	Enhancers	HUES6 Cell Line	embryonic stem cell

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