Variant report

Variant	rs2962025
Chromosome Location	chr5:57541148-57541149
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	chr5:57527499..57530106-chr5:57539853..57541635,2	MCF-7	breast:
2	chr5:57535441..57538302-chr5:57538781..57541164,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1562242	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1862540	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1972647	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2409006	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2910578	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2910579	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2910581	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2910586	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2910606	0.92[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2962007	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964190	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964192	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964194	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964196	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964197	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2964201	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs37489	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs37491	0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs37513	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37514	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37515	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37517	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37518	0.92[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37525	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37529	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs37530	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs40531	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs41385	0.91[JPT][hapmap]
rs7715909	0.92[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs972060	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs972061	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57526200-57544000	Weak transcription	Aorta	Aorta
2	chr5:57534800-57555200	Weak transcription	Left Ventricle	heart
3	chr5:57536200-57541400	Weak transcription	Right Atrium	heart
4	chr5:57536200-57542200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr5:57536600-57544200	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr5:57536800-57542200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr5:57537400-57541800	Weak transcription	NHDF-Ad	bronchial
8	chr5:57537400-57542200	Weak transcription	Osteobl	bone
9	chr5:57537600-57542200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:57537600-57542200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr5:57537600-57542200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:57537600-57542400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr5:57537600-57542400	Weak transcription	NHLF	lung
14	chr5:57537600-57542600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:57537800-57542200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:57537800-57542200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr5:57540200-57541600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr5:57540400-57544200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr5:57540600-57541200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr5:57540600-57541600	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr5:57540600-57541800	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr5:57540800-57541400	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr5:57540800-57541600	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr5:57540800-57541800	Weak transcription	Adipose Nuclei	Adipose
25	chr5:57540800-57542200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr5:57540800-57542800	Weak transcription	Psoas Muscle	Psoas
27	chr5:57540800-57542800	Enhancers	A549	lung
28	chr5:57540800-57543200	Enhancers	Hela-S3	cervix
29	chr5:57541000-57541600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr5:57541000-57542000	Flanking Active TSS	HUVEC	blood vessel

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