Variant report

Variant	rs10882326
Chromosome Location	chr10:95509444-95509445
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	chr10:95507841..95511578-chr10:95514882..95519880,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108231	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10736078	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786136	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2095891	0.89[MKK][hapmap]
rs4919484	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4919491	0.94[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs873920	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs913047	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs946553	0.92[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[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	esv3346948	chr10:95421957-95532625	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs10882326	CGREF1	trans	parietal	SCAN
rs10882326	FRA10AC1	cis	Esophagus Muscularis	GTEx
rs10882326	FRA10AC1	cis	Adipose Subcutaneous	GTEx
rs10882326	FRA10AC1	cis	Nerve Tibial	GTEx
rs10882326	FRA10AC1	cis	Muscle Skeletal	GTEx
rs10882326	CEP55	cis	parietal	SCAN
rs10882326	FRA10AC1	cis	Artery Tibial	GTEx
rs10882326	C10orf4	Cis_1M	lymphoblastoid	RTeQTL
rs10882326	HECTD2	cis	cerebellum	SCAN
rs10882326	FRA10AC1	cis	cerebellum	SCAN
rs10882326	FRA10AC1	cis	parietal	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95503000-95511600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr10:95505400-95511600	Weak transcription	Liver	Liver
3	chr10:95505800-95517600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:95506400-95509600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr10:95506600-95511800	Weak transcription	Stomach Mucosa	stomach
6	chr10:95506800-95510200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:95506800-95511800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr10:95507000-95510800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr10:95507000-95511000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:95507000-95511000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr10:95507000-95511600	Weak transcription	Brain Substantia Nigra	brain
12	chr10:95507000-95511600	Weak transcription	A549	lung
13	chr10:95507200-95511800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr10:95507600-95511800	Weak transcription	HSMMtube	muscle
15	chr10:95507800-95511800	Weak transcription	NH-A	brain
16	chr10:95508000-95509600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr10:95508200-95509600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:95508200-95509800	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr10:95508200-95509800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:95508200-95509800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr10:95508200-95510000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:95508200-95512800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr10:95508200-95515000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr10:95508400-95509600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:95508400-95509600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr10:95508400-95509600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr10:95508400-95509600	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr10:95508400-95509600	Enhancers	Fetal Stomach	stomach
29	chr10:95508400-95509600	Enhancers	Osteobl	bone
30	chr10:95508400-95509800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr10:95508400-95509800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
32	chr10:95508400-95511800	Enhancers	H1 Cell Line	embryonic stem cell
33	chr10:95508400-95512200	Enhancers	Fetal Intestine Large	intestine
34	chr10:95508400-95512200	Enhancers	Fetal Intestine Small	intestine
35	chr10:95508600-95509600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr10:95508600-95509600	Enhancers	Placenta Amnion	Placenta Amnion
37	chr10:95508600-95509800	Enhancers	Colon Smooth Muscle	Colon
38	chr10:95508600-95509800	Enhancers	NHLF	lung
39	chr10:95508800-95509600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr10:95508800-95509600	Enhancers	Rectal Smooth Muscle	rectum
41	chr10:95508800-95509600	Enhancers	NHDF-Ad	bronchial
42	chr10:95508800-95509800	Enhancers	Duodenum Mucosa	Duodenum
43	chr10:95508800-95509800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr10:95508800-95509800	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr10:95509000-95509600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr10:95509000-95509600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
47	chr10:95509000-95509800	Enhancers	Hela-S3	cervix
48	chr10:95509000-95510000	Enhancers	Placenta	Placenta
49	chr10:95509200-95509600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
50	chr10:95509200-95509600	Enhancers	Fetal Lung	lung

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