Variant report

Variant	rs9525028
Chromosome Location	chr13:96238829-96238830
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1000601	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1952107	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs4771920	0.92[CEU][hapmap];0.83[CHD][hapmap];0.97[GIH][hapmap];1.00[LWK][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs4771921	0.89[EUR][1000 genomes]
rs4773919	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59483123	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72651928	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7324901	1.00[YRI][hapmap]
rs7995795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8001332	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9516600	0.86[EUR][1000 genomes]
rs9516601	0.87[EUR][1000 genomes]
rs9516602	0.89[EUR][1000 genomes]
rs9525011	0.83[EUR][1000 genomes]
rs9525016	0.84[EUR][1000 genomes]
rs9525017	0.84[CEU][hapmap];0.81[CHD][hapmap];0.97[GIH][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs9525018	0.85[EUR][1000 genomes]
rs9525019	0.87[EUR][1000 genomes]
rs9525020	0.87[EUR][1000 genomes]
rs9525025	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9525026	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9525029	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9525030	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9525032	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9525028	FARP1	cis	cerebellum	SCAN
rs9525028	CLDN10	cis	parietal	SCAN
rs9525028	UGCGL2	cis	multi-tissue	Pritchard

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96223000-96239400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:96224200-96254200	Weak transcription	Brain Hippocampus Middle	brain
3	chr13:96224400-96239200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr13:96224400-96248000	Weak transcription	Esophagus	oesophagus
5	chr13:96225800-96239200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr13:96227000-96239400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr13:96227200-96246400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr13:96227600-96246000	Strong transcription	Osteobl	bone
9	chr13:96227800-96246400	Strong transcription	Cortex derived primary cultured neurospheres	brain
10	chr13:96227800-96253600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr13:96228200-96246400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr13:96228600-96246200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr13:96228600-96246400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:96228600-96246400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr13:96228600-96246600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr13:96228800-96243200	Strong transcription	NH-A	brain
17	chr13:96228800-96246600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr13:96229000-96240200	Strong transcription	Fetal Muscle Leg	muscle
19	chr13:96229000-96243200	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr13:96229000-96243200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr13:96229000-96256200	Weak transcription	Gastric	stomach
22	chr13:96229200-96243200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr13:96229400-96243400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
24	chr13:96229600-96253600	Weak transcription	Adipose Nuclei	Adipose
25	chr13:96229600-96256000	Weak transcription	Right Ventricle	heart
26	chr13:96229800-96246200	Strong transcription	Fetal Muscle Trunk	muscle
27	chr13:96230000-96246400	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr13:96230200-96258200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr13:96230600-96242800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr13:96230600-96243200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr13:96230600-96243800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr13:96230800-96240000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr13:96231000-96240200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr13:96231000-96246400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr13:96231200-96240800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr13:96231400-96243400	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr13:96231600-96239200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr13:96231600-96239200	Weak transcription	Pancreas	Pancrea
39	chr13:96231600-96260000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr13:96231800-96256800	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr13:96232000-96239400	Weak transcription	Fetal Heart	heart
42	chr13:96232200-96272800	Weak transcription	Brain Substantia Nigra	brain
43	chr13:96233400-96243200	Strong transcription	HUVEC	blood vessel
44	chr13:96233800-96240200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr13:96234400-96240600	Strong transcription	Fetal Stomach	stomach
46	chr13:96235400-96239200	Weak transcription	Brain Cingulate Gyrus	brain
47	chr13:96235400-96239200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr13:96235400-96239400	Weak transcription	Aorta	Aorta
49	chr13:96235400-96253400	Weak transcription	Left Ventricle	heart
50	chr13:96235600-96239000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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