Variant report

Variant	rs6534178
Chromosome Location	chr4:121177891-121177892
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	chr4:121167566..121169623-chr4:121176920..121179543,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1355112	0.80[ASN][1000 genomes]
rs2036695	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2036696	0.91[ASN][1000 genomes]
rs2662702	0.98[ASN][1000 genomes]
rs2662704	0.95[ASN][1000 genomes]
rs2662708	0.94[ASN][1000 genomes]
rs2662709	0.95[ASN][1000 genomes]
rs2662715	0.89[ASN][1000 genomes]
rs2662720	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2662721	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2662722	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2662727	0.87[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2662731	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2662735	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2662738	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2662739	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2662741	0.91[ASN][1000 genomes]
rs2662743	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2662747	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2662749	0.86[ASN][1000 genomes]
rs2662754	0.92[ASN][1000 genomes]
rs2662760	0.84[ASN][1000 genomes]
rs2693755	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2693756	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2693758	0.89[ASN][1000 genomes]
rs2715951	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2715952	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2715953	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2715957	0.84[ASN][1000 genomes]
rs2715958	0.89[ASN][1000 genomes]
rs2715959	0.89[ASN][1000 genomes]
rs2715960	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2715965	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2715966	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2715968	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2715978	0.95[ASN][1000 genomes]
rs2715983	0.87[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2715988	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2715989	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2716009	0.95[ASN][1000 genomes]
rs2716010	0.93[ASN][1000 genomes]
rs955002	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9997147	0.92[ASN][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	nsv1007641	chr4:120884220-121555889	Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv537234	chr4:120884220-121555889	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	esv1845528	chr4:121034480-121185834	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv595333	chr4:121093248-121440368	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1005240	chr4:121093285-121420997	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv879852	chr4:121108734-121768496	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv1002606	chr4:121145456-121194713	Active TSS Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:121177200-121178000	Active TSS	H9 Cell Line	embryonic stem cell
2	chr4:121177200-121178000	Active TSS	iPS-18 Cell Line	embryonic stem cell
3	chr4:121177200-121178000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr4:121177200-121178200	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr4:121177200-121178800	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr4:121177400-121178000	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr4:121177400-121178000	Active TSS	iPS-15b Cell Line	embryonic stem cell
8	chr4:121177400-121178000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr4:121177400-121178200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
10	chr4:121177400-121178200	Active TSS	H1 Cell Line	embryonic stem cell
11	chr4:121177400-121178200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr4:121177400-121178200	Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr4:121177400-121178200	Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr4:121177600-121178000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr4:121177600-121178000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr4:121177600-121178000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr4:121177600-121178000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
18	chr4:121177600-121178200	Active TSS	ES-I3 Cell Line	embryonic stem cell

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