Variant report

Variant	rs10007853
Chromosome Location	chr4:75971906-75971907
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:75967944..75969741-chr4:75971903..75973478,2	MCF-7	breast:
2	chr4:75970596..75973286-chr4:75981440..75983970,2	MCF-7	breast:
3	chr4:75971065..75972930-chr4:75979010..75980545,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10012438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10015360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10015456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10018358	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1043633	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1043634	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10518133	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11943279	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1346138	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs16997586	0.94[ASN][1000 genomes]
rs17000108	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17000109	0.94[ASN][1000 genomes]
rs17000112	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17000114	0.92[ASN][1000 genomes]
rs17000141	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17000149	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17000150	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17198085	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17250403	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17250773	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28461358	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3733466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3733467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775530	0.92[ASN][1000 genomes]
rs3796683	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6824037	0.89[ASN][1000 genomes]
rs6829853	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6836425	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6851144	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72660383	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs72660386	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs72660401	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7654416	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7680016	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7683115	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs890289	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9090	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005324	chr4:75689880-76233555	Bivalent/Poised TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv537142	chr4:75689880-76233555	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10007853	DKFZP564O0823	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:75940000-75976200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr4:75956400-75976000	Weak transcription	Spleen	Spleen
3	chr4:75956800-75982800	Weak transcription	Pancreas	Pancrea
4	chr4:75957200-75976400	Weak transcription	Colonic Mucosa	Colon
5	chr4:75962800-75975800	Weak transcription	Fetal Intestine Large	intestine
6	chr4:75963200-75976000	Weak transcription	Adipose Nuclei	Adipose
7	chr4:75967800-75974800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr4:75969000-75972400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr4:75971000-75972200	Strong transcription	Fetal Muscle Trunk	muscle
10	chr4:75971000-75972800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:75971000-75974000	Enhancers	Fetal Heart	heart
12	chr4:75971000-75974800	Strong transcription	Aorta	Aorta
13	chr4:75971200-75972400	Enhancers	Primary B cells from peripheral blood	blood
14	chr4:75971200-75972400	Strong transcription	Fetal Intestine Small	intestine
15	chr4:75971200-75974000	Strong transcription	Rectal Mucosa Donor 29	rectum
16	chr4:75971200-75974800	Strong transcription	Fetal Muscle Leg	muscle
17	chr4:75971600-75972200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr4:75971800-75972400	Weak transcription	GM12878-XiMat	blood
19	chr4:75971800-75972800	Weak transcription	Right Atrium	heart
20	chr4:75971800-75976600	Weak transcription	Left Ventricle	heart
21	chr4:75971800-75978600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr4:75971800-75979200	Weak transcription	Sigmoid Colon	Sigmoid Colon

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