Variant report

Variant	rs16941446
Chromosome Location	chr15:59784726-59784727
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:59466810..59467651-chr15:59784616..59785747,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11853900	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11853953	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11856047	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11856481	0.88[ASN][1000 genomes]
rs11857239	0.88[ASN][1000 genomes]
rs11857953	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858284	0.94[ASN][1000 genomes]
rs16941441	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16941448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16941450	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]
rs4597258	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56327354	1.00[ASN][1000 genomes]
rs57391884	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57767828	0.94[ASN][1000 genomes]
rs58433957	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59266497	0.94[ASN][1000 genomes]
rs71119480	0.94[ASN][1000 genomes]
rs7161900	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs73417042	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73417089	0.88[ASN][1000 genomes]
rs73418913	0.94[ASN][1000 genomes]
rs8028232	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8028330	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8029395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8036164	0.98[EUR][1000 genomes];1.00[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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59736800-59785000	Weak transcription	Fetal Brain Male	brain
2	chr15:59767600-59785000	Weak transcription	Pancreas	Pancrea
3	chr15:59775800-59785000	Weak transcription	Duodenum Mucosa	Duodenum
4	chr15:59782000-59785000	Weak transcription	Brain Anterior Caudate	brain
5	chr15:59782400-59785600	Enhancers	Fetal Heart	heart
6	chr15:59783400-59785000	Enhancers	Brain Hippocampus Middle	brain
7	chr15:59783400-59785000	Weak transcription	Fetal Intestine Small	intestine
8	chr15:59783600-59785000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:59783600-59785000	Enhancers	Brain Cingulate Gyrus	brain
10	chr15:59783800-59785600	Enhancers	Brain Angular Gyrus	brain
11	chr15:59784000-59785200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:59784000-59788600	Weak transcription	Left Ventricle	heart
13	chr15:59784200-59785600	Enhancers	Primary B cells from cord blood	blood
14	chr15:59784400-59785000	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr15:59784400-59785000	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr15:59784400-59785000	Enhancers	Brain Substantia Nigra	brain
17	chr15:59784400-59785000	Enhancers	Hela-S3	cervix
18	chr15:59784400-59785600	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr15:59784400-59785600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr15:59784400-59785600	Enhancers	A549	lung
21	chr15:59784400-59785600	Enhancers	GM12878-XiMat	blood
22	chr15:59784400-59785600	Enhancers	HepG2	liver
23	chr15:59784600-59784800	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr15:59784600-59784800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:59784600-59784800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr15:59784600-59785000	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr15:59784600-59785200	Enhancers	Muscle Satellite Cultured Cells	--
28	chr15:59784600-59785400	Enhancers	HSMMtube	muscle
29	chr15:59784600-59785400	Enhancers	NHDF-Ad	bronchial
30	chr15:59784600-59785600	Enhancers	H9 Cell Line	embryonic stem cell
31	chr15:59784600-59785600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr15:59784600-59785600	Enhancers	HUES6 Cell Line	embryonic stem cell
33	chr15:59784600-59785600	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr15:59784600-59785600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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