Variant report

Variant	rs2179800
Chromosome Location	chr20:24616339-24616340
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:24616131..24617827-chr20:24647064..24649863,2	MCF-7	breast:
2	chr20:24611712..24613428-chr20:24614096..24616788,2	K562	blood:
3	chr20:24610034..24611986-chr20:24615289..24617855,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12480522	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12481129	0.95[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12481146	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17250068	0.90[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17823746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1883923	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1887057	0.95[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2024608	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026566	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2892216	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4813523	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4813524	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4815282	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4815286	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815287	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815288	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815289	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815290	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4815291	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55770994	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58949684	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6036849	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6036851	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6036854	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60869925	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7268862	0.95[CEU][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73345329	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73345369	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73345393	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8118304	0.86[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[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	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv912824	chr20:24612808-24639916	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24608800-24616800	Enhancers	Brain Hippocampus Middle	brain
2	chr20:24613400-24616600	Enhancers	Brain Substantia Nigra	brain
3	chr20:24613400-24618000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr20:24613800-24618000	Enhancers	H9 Cell Line	embryonic stem cell
5	chr20:24614000-24619400	Weak transcription	Gastric	stomach
6	chr20:24614200-24619200	Weak transcription	Aorta	Aorta
7	chr20:24614400-24616600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr20:24614600-24619800	Weak transcription	Esophagus	oesophagus
9	chr20:24614800-24616400	Enhancers	Brain Angular Gyrus	brain
10	chr20:24614800-24616600	Enhancers	HSMM	muscle
11	chr20:24614800-24617000	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr20:24614800-24617800	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr20:24614800-24617800	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr20:24615000-24616800	Enhancers	HSMMtube	muscle
15	chr20:24615000-24617800	Enhancers	H1 Cell Line	embryonic stem cell
16	chr20:24615200-24617000	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr20:24615200-24617400	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr20:24615200-24617800	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr20:24615200-24620200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr20:24615400-24617000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
21	chr20:24615400-24617400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr20:24615400-24633800	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr20:24615600-24619400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr20:24615800-24616600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr20:24615800-24617200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr20:24616000-24616400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr20:24616200-24616600	Enhancers	A549	lung
28	chr20:24616200-24618400	Weak transcription	Fetal Thymus	thymus
29	chr20:24616200-24619000	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr20:24616200-24619600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr20:24616200-24639600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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