Variant report

Variant	rs1978498
Chromosome Location	chr15:34203668-34203669
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	chr15:34199838..34201738-chr15:34201918..34204540,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10152468	0.88[CHD][hapmap]
rs10152547	0.89[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs10152674	0.88[CHD][hapmap]
rs10152857	0.85[CHB][hapmap];0.91[CHD][hapmap];0.82[ASN][1000 genomes]
rs1019585	0.96[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10775217	0.81[EUR][1000 genomes]
rs12591428	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12592331	0.88[CHD][hapmap]
rs12592619	0.90[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs1862916	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1862917	0.90[CHB][hapmap];0.95[CHD][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs1978499	0.90[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs2879440	0.90[CHB][hapmap];0.87[ASN][1000 genomes]
rs3889750	0.80[CHB][hapmap]
rs4533258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs571157	0.81[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs572917	0.84[CEU][hapmap];0.85[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs606948	0.84[ASN][1000 genomes]
rs609221	0.80[ASN][1000 genomes]
rs6495331	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7170866	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[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	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv568921	chr15:34046635-34247622	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv1044844	chr15:34065524-34296829	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv903984	chr15:34174066-34238804	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34199600-34220800	Weak transcription	Right Atrium	heart
2	chr15:34201600-34207800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr15:34201600-34208000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr15:34202000-34204000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr15:34202000-34207600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr15:34202200-34204600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:34202600-34203800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:34202600-34203800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr15:34202600-34203800	Enhancers	A549	lung
10	chr15:34202600-34203800	Enhancers	HSMM	muscle
11	chr15:34202600-34203800	Enhancers	NHDF-Ad	bronchial
12	chr15:34202600-34204200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr15:34203000-34207600	Weak transcription	GM12878-XiMat	blood
14	chr15:34203200-34203800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:34203200-34203800	Enhancers	Fetal Heart	heart
16	chr15:34203200-34204000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr15:34203400-34203800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:34203400-34203800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr15:34203600-34205000	Enhancers	Muscle Satellite Cultured Cells	--
20	chr15:34203600-34205400	Weak transcription	HUVEC	blood vessel
21	chr15:34203600-34205400	Weak transcription	Osteobl	bone
22	chr15:34203600-34205600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr15:34203600-34207600	Weak transcription	Hela-S3	cervix
24	chr15:34203600-34207600	Weak transcription	HMEC	breast
25	chr15:34203600-34207600	Weak transcription	NHEK	skin
26	chr15:34203600-34207800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr15:34203600-34207800	Weak transcription	HSMMtube	muscle

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