Variant report

Variant	rs12959824
Chromosome Location	chr18:45522814-45522815
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:45522234..45524645-chr18:45528573..45530359,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12956843	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4940158	0.89[EUR][1000 genomes]
rs4940166	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71355327	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7237616	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7505878	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7506149	0.84[AMR][1000 genomes]
rs7506362	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8083581	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs8086080	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8096094	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8099224	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909616	chr18:45467806-45844500	Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1066479	chr18:45505569-45554507	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1055669	chr18:45513090-45559375	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:45510400-45523600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr18:45516000-45523800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr18:45516200-45527600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr18:45517600-45529000	Weak transcription	Right Ventricle	heart
5	chr18:45520400-45529600	Weak transcription	Stomach Mucosa	stomach
6	chr18:45521000-45523600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr18:45521200-45526200	Weak transcription	Hela-S3	cervix
8	chr18:45521400-45523400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr18:45521800-45523400	Enhancers	HSMM	muscle
10	chr18:45521800-45523400	Enhancers	HSMMtube	muscle
11	chr18:45521800-45523600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr18:45522000-45523000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr18:45522000-45523000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr18:45522200-45523000	Enhancers	Muscle Satellite Cultured Cells	--
15	chr18:45522200-45524000	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr18:45522400-45523000	Enhancers	Brain Germinal Matrix	brain
17	chr18:45522400-45523200	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr18:45522400-45523800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr18:45522600-45523200	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr18:45522800-45523000	Enhancers	H1 Cell Line	embryonic stem cell
21	chr18:45522800-45523200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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