Variant report

Variant	rs2955738
Chromosome Location	chr15:76431328-76431329
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:76350898..76351807-chr15:76431306..76432503,7	MCF-7	breast:
2	chr15:76195261..76196894-chr15:76430486..76432103,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167196	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1018098	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11630305	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12324142	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs1391470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1518964	1.00[CEU][hapmap]
rs16967934	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2088485	0.87[YRI][hapmap]
rs2405416	0.81[YRI][hapmap]
rs2454472	1.00[CEU][hapmap]
rs2469563	0.92[EUR][1000 genomes]
rs28435523	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28623186	1.00[ASN][1000 genomes]
rs28713704	0.92[EUR][1000 genomes]
rs2935971	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2935979	0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs2935980	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2955721	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2955722	0.92[ASN][1000 genomes]
rs2955723	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2955725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955730	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955739	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs2955742	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2957039	0.92[ASN][1000 genomes]
rs2957040	0.85[ASN][1000 genomes]
rs2957041	1.00[CHB][hapmap]
rs2957042	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2959857	1.00[JPT][hapmap]
rs2959858	0.85[ASN][1000 genomes]
rs2959860	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2959861	1.00[ASN][1000 genomes]
rs2959863	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2959867	0.88[AFR][1000 genomes]
rs57906605	1.00[EUR][1000 genomes]
rs58215773	1.00[EUR][1000 genomes]
rs58863068	1.00[EUR][1000 genomes]
rs7163654	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7173697	1.00[CEU][hapmap]
rs7174365	1.00[CEU][hapmap]
rs74024085	0.92[EUR][1000 genomes]
rs74024095	1.00[EUR][1000 genomes]
rs74024096	1.00[EUR][1000 genomes]
rs74024098	1.00[EUR][1000 genomes]
rs74024101	1.00[EUR][1000 genomes]
rs74024102	1.00[EUR][1000 genomes]
rs8030469	1.00[CEU][hapmap]
rs904279	0.80[YRI][hapmap]

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	nsv569998	chr15:76232605-76550938	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1048760	chr15:76334544-76496977	Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv833057	chr15:76367848-76585868	ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76416600-76431600	Weak transcription	Pancreas	Pancrea
2	chr15:76426400-76432000	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr15:76428200-76432000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:76429000-76432000	Weak transcription	Brain Hippocampus Middle	brain
5	chr15:76429400-76442800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr15:76429600-76442800	Weak transcription	Brain Angular Gyrus	brain
7	chr15:76430600-76431400	Strong transcription	Skeletal Muscle Female	skeletal muscle
8	chr15:76430600-76431800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:76430600-76432400	Enhancers	HMEC	breast
10	chr15:76430600-76432800	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr15:76430800-76431400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:76430800-76431400	Flanking Active TSS	NHEK	skin
13	chr15:76430800-76432000	Enhancers	Esophagus	oesophagus
14	chr15:76430800-76432400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:76431000-76432200	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr15:76431000-76432600	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr15:76431000-76433000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:76431200-76432000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr15:76431200-76432200	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr15:76431200-76432600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr15:76431200-76432600	Enhancers	Placenta	Placenta
22	chr15:76431200-76432800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:76431200-76432800	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr15:76431200-76432800	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr15:76431200-76432800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:76431200-76432800	Enhancers	GM12878-XiMat	blood

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