Variant report

Variant	rs4740554
Chromosome Location	chr9:13688437-13688438
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	chr9:13686906..13689504-chr9:14312996..14314764,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147862	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12000765	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12002788	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16930601	0.82[EUR][1000 genomes]
rs4741324	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs522594	0.90[ASN][1000 genomes]
rs62533191	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7026298	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7042010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8192986	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023684	chr9:13529680-13744602	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv540067	chr9:13529680-13744602	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv892587	chr9:13601074-13732363	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv1843958	chr9:13631992-13706651	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv892588	chr9:13667639-13715063	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
6	nsv1018933	chr9:13669862-13756710	Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13685200-13688600	Weak transcription	Aorta	Aorta
2	chr9:13685200-13688600	Weak transcription	Right Atrium	heart
3	chr9:13685200-13688600	Weak transcription	HUVEC	blood vessel
4	chr9:13686000-13688600	Weak transcription	Left Ventricle	heart
5	chr9:13686000-13688600	Weak transcription	Psoas Muscle	Psoas
6	chr9:13686800-13688600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr9:13687600-13689600	Enhancers	HMEC	breast
8	chr9:13687800-13690000	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr9:13687800-13690200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:13688000-13688600	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr9:13688000-13689000	Enhancers	NHEK	skin
12	chr9:13688000-13689400	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr9:13688000-13689400	Enhancers	Fetal Heart	heart
14	chr9:13688200-13689000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:13688200-13689400	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr9:13688200-13689800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr9:13688200-13690000	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr9:13688400-13688600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr9:13688400-13688600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
20	chr9:13688400-13688600	Enhancers	Adipose Nuclei	Adipose
21	chr9:13688400-13689200	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr9:13688400-13689400	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr9:13688400-13689600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr9:13688400-13689600	Enhancers	Colon Smooth Muscle	Colon

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