Variant report

Variant	rs2962007
Chromosome Location	chr5:57537747-57537748
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	chr5:57535441..57538302-chr5:57538781..57541164,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1562242	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1862540	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1972647	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2409006	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2910578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2910579	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2910581	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2910586	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2910606	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2962025	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964190	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2964192	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964194	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964196	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964197	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2964198	0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2964201	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs37489	0.82[AMR][1000 genomes]
rs37491	0.82[AMR][1000 genomes]
rs37513	0.83[AMR][1000 genomes]
rs37514	0.83[AMR][1000 genomes]
rs37515	0.84[AMR][1000 genomes]
rs37517	0.84[AMR][1000 genomes]
rs37518	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes]
rs37525	0.87[AMR][1000 genomes]
rs37529	0.87[AMR][1000 genomes]
rs37530	0.87[AMR][1000 genomes]
rs40531	0.84[AMR][1000 genomes]
rs41385	0.84[CHB][hapmap];0.91[JPT][hapmap]
rs7715909	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs972060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs972061	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432746	chr5:57502859-57547419	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57526200-57544000	Weak transcription	Aorta	Aorta
2	chr5:57534400-57538000	Enhancers	Hela-S3	cervix
3	chr5:57534800-57555200	Weak transcription	Left Ventricle	heart
4	chr5:57535400-57537800	Enhancers	Muscle Satellite Cultured Cells	--
5	chr5:57535400-57540600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:57535400-57540800	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr5:57535600-57538000	Enhancers	NH-A	brain
8	chr5:57535800-57538000	Enhancers	NHEK	skin
9	chr5:57536000-57540400	Weak transcription	Psoas Muscle	Psoas
10	chr5:57536200-57541400	Weak transcription	Right Atrium	heart
11	chr5:57536200-57542200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr5:57536400-57540800	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr5:57536600-57544200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr5:57536800-57537800	Enhancers	A549	lung
15	chr5:57536800-57542200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr5:57537200-57537800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr5:57537200-57537800	Weak transcription	Adipose Nuclei	Adipose
18	chr5:57537200-57537800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr5:57537400-57540400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr5:57537400-57541800	Weak transcription	NHDF-Ad	bronchial
21	chr5:57537400-57542200	Weak transcription	Osteobl	bone
22	chr5:57537600-57537800	Flanking Active TSS	HUVEC	blood vessel
23	chr5:57537600-57542200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr5:57537600-57542200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr5:57537600-57542200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr5:57537600-57542400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr5:57537600-57542400	Weak transcription	NHLF	lung
28	chr5:57537600-57542600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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