Variant report

Variant	rs9877951
Chromosome Location	chr3:100497098-100497099
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12696195	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13069634	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs13089098	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13433770	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1979895	0.92[CEU][hapmap]
rs1992107	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6765500	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs73861213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7615467	1.00[CEU][hapmap];0.86[GIH][hapmap];0.83[TSI][hapmap];0.90[EUR][1000 genomes]
rs7642643	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9814084	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9823432	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9833369	0.80[AMR][1000 genomes]
rs9836360	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9846590	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9873555	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9877253	0.86[GIH][hapmap];0.83[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9877951	FAM55C	cis	parietal	SCAN

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100450000-100501000	Weak transcription	Esophagus	oesophagus
2	chr3:100467400-100497600	Weak transcription	Fetal Intestine Small	intestine
3	chr3:100469800-100498200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:100469800-100501400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:100470200-100498400	Weak transcription	Right Ventricle	heart
6	chr3:100471600-100500400	Weak transcription	Lung	lung
7	chr3:100471800-100502000	Weak transcription	Brain Anterior Caudate	brain
8	chr3:100474400-100500200	Weak transcription	HSMM	muscle
9	chr3:100474400-100501200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:100475000-100499000	Weak transcription	Placenta	Placenta
11	chr3:100475600-100520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr3:100478800-100502000	Weak transcription	Psoas Muscle	Psoas
13	chr3:100488600-100504600	Weak transcription	Adipose Nuclei	Adipose
14	chr3:100489600-100500200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr3:100489800-100504800	Weak transcription	Left Ventricle	heart
16	chr3:100492400-100501000	Strong transcription	Stomach Smooth Muscle	stomach
17	chr3:100493000-100497200	Strong transcription	Fetal Muscle Trunk	muscle
18	chr3:100493000-100497200	Strong transcription	Fetal Muscle Leg	muscle
19	chr3:100493800-100497200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:100494000-100497200	Genic enhancers	Osteobl	bone
21	chr3:100494400-100497200	Genic enhancers	NHDF-Ad	bronchial
22	chr3:100494800-100499200	Strong transcription	Fetal Stomach	stomach
23	chr3:100494800-100501600	Weak transcription	HMEC	breast
24	chr3:100494800-100523400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:100495000-100497200	Strong transcription	Muscle Satellite Cultured Cells	--
26	chr3:100495000-100499200	Strong transcription	HSMMtube	muscle
27	chr3:100495000-100501000	Weak transcription	Colon Smooth Muscle	Colon
28	chr3:100495200-100497200	Strong transcription	Fetal Lung	lung
29	chr3:100495400-100497200	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:100495600-100499000	Strong transcription	Ovary	ovary
31	chr3:100496200-100504200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:100496400-100497200	Strong transcription	Fetal Intestine Large	intestine
33	chr3:100496600-100500000	Weak transcription	NHEK	skin
34	chr3:100496600-100500400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr3:100496800-100498600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:100496800-100498800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:100496800-100498800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr3:100496800-100498800	Weak transcription	NH-A	brain
39	chr3:100496800-100500000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr3:100496800-100500400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr3:100496800-100500400	Weak transcription	NHLF	lung
42	chr3:100496800-100501200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:100496800-100511200	Weak transcription	Aorta	Aorta
44	chr3:100497000-100497200	Enhancers	Pancreas	Pancrea

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