Variant report

Variant	rs3814689
Chromosome Location	chr10:95754732-95754733
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	chr10:95754206..95756306-chr10:95773909..95775947,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10882378	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10882379	0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10882380	0.95[CEU][hapmap];0.87[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11187741	0.85[ASN][1000 genomes]
rs11187760	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11187765	0.86[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11187767	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11594479	0.95[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11599672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12573786	0.85[ASN][1000 genomes]
rs17415646	0.85[MEX][hapmap]
rs2182093	0.85[MEX][hapmap]
rs35038192	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61866000	0.85[ASN][1000 genomes]
rs61866026	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61886277	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6583922	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7071652	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7073291	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7094594	0.85[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3814689	PLCE1	cis	parietal	SCAN
rs3814689	ALDH18A1	cis	parietal	SCAN

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95753000-95756200	Active TSS	Rectal Smooth Muscle	rectum
2	chr10:95753200-95754800	Active TSS	Duodenum Mucosa	Duodenum
3	chr10:95753200-95755000	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
4	chr10:95753200-95755000	Active TSS	Colon Smooth Muscle	Colon
5	chr10:95753200-95755000	Bivalent/Poised TSS	Sigmoid Colon	Sigmoid Colon
6	chr10:95753200-95755200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr10:95753200-95755600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
8	chr10:95753200-95755800	Active TSS	Right Atrium	heart
9	chr10:95753200-95756400	Active TSS	Rectal Mucosa Donor 29	rectum
10	chr10:95753400-95754800	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr10:95753400-95754800	Active TSS	Small Intestine	intestine
12	chr10:95753400-95755200	Active TSS	Stomach Mucosa	stomach
13	chr10:95753400-95755600	Active TSS	Fetal Intestine Small	intestine
14	chr10:95753400-95756200	Active TSS	Rectal Mucosa Donor 31	rectum
15	chr10:95753400-95756600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr10:95753800-95754800	Flanking Active TSS	Adipose Nuclei	Adipose
17	chr10:95754000-95755200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
18	chr10:95754000-95755600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
19	chr10:95754200-95755000	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr10:95754200-95755000	Bivalent/Poised TSS	Brain Anterior Caudate	brain
21	chr10:95754200-95755400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr10:95754200-95755400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr10:95754200-95760600	Weak transcription	Spleen	Spleen
24	chr10:95754400-95754800	Bivalent Enhancer	Fetal Heart	heart
25	chr10:95754400-95754800	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
26	chr10:95754400-95754800	Active TSS	Fetal Muscle Leg	muscle
27	chr10:95754400-95755000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr10:95754400-95755000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
29	chr10:95754400-95755000	Enhancers	Esophagus	oesophagus
30	chr10:95754400-95755000	Bivalent/Poised TSS	Fetal Kidney	kidney
31	chr10:95754400-95755000	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
32	chr10:95754400-95755200	Flanking Active TSS	Fetal Brain Female	brain
33	chr10:95754400-95755200	Active TSS	HSMMtube	muscle
34	chr10:95754400-95755600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr10:95754400-95755800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr10:95754400-95756000	Weak transcription	Gastric	stomach
37	chr10:95754400-95756000	Flanking Active TSS	A549	lung
38	chr10:95754400-95756200	Active TSS	Fetal Muscle Trunk	muscle
39	chr10:95754400-95756200	Enhancers	Pancreas	Pancrea
40	chr10:95754400-95756400	Active TSS	Colonic Mucosa	Colon
41	chr10:95754400-95759400	Weak transcription	Psoas Muscle	Psoas
42	chr10:95754600-95754800	Bivalent Enhancer	Placenta	Placenta
43	chr10:95754600-95755000	Active TSS	Stomach Smooth Muscle	stomach
44	chr10:95754600-95755200	Bivalent/Poised TSS	Fetal Brain Male	brain
45	chr10:95754600-95755200	Flanking Active TSS	Fetal Intestine Large	intestine
46	chr10:95754600-95755200	Flanking Bivalent TSS/Enh	Fetal Lung	lung
47	chr10:95754600-95756000	Enhancers	Muscle Satellite Cultured Cells	--
48	chr10:95754600-95756000	Enhancers	HSMM	muscle
49	chr10:95754600-95756000	Enhancers	Osteobl	bone
50	chr10:95754600-95756200	Enhancers	Breast Myoepithelial Primary Cells	Breast

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