Variant report

Variant	rs3765479
Chromosome Location	chrX:54960556-54960557
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1043031	0.94[CEU][hapmap];0.81[CHB][hapmap];0.90[CHD][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap]
rs1043034	0.94[CEU][hapmap];0.81[CHB][hapmap];0.90[CHD][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap]
rs1043044	0.94[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap]
rs12014660	0.89[CEU][hapmap];0.82[CHB][hapmap];0.82[MEX][hapmap];0.97[TSI][hapmap]
rs12851962	1.00[CEU][hapmap];0.96[GIH][hapmap];0.97[TSI][hapmap]
rs12858090	0.94[CEU][hapmap];0.88[CHB][hapmap]
rs12858147	0.94[CEU][hapmap];0.87[CHB][hapmap]
rs2005463	0.89[CEU][hapmap];0.92[GIH][hapmap];0.94[TSI][hapmap]
rs2071932	0.94[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs2071933	0.94[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs2071934	0.94[CEU][hapmap];0.88[CHB][hapmap]
rs2273138	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap]
rs2281383	1.00[CEU][hapmap];0.92[GIH][hapmap];0.97[TSI][hapmap]
rs2361189	0.94[CEU][hapmap]
rs4826364	0.89[CEU][hapmap];0.88[CHB][hapmap];0.80[CHD][hapmap];0.96[GIH][hapmap];0.97[TSI][hapmap]
rs4826365	0.89[CEU][hapmap];0.82[CHB][hapmap];0.80[CHD][hapmap];0.96[GIH][hapmap];0.97[TSI][hapmap]
rs5914241	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[CHD][hapmap];0.96[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs5960055	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs5960336	0.94[CEU][hapmap];0.87[CHB][hapmap]
rs6611391	1.00[CEU][hapmap];0.88[CHB][hapmap];0.86[YRI][hapmap]
rs704145	0.81[GIH][hapmap]
rs743974	0.94[CEU][hapmap];0.81[CHB][hapmap];0.87[CHD][hapmap];0.88[MEX][hapmap];0.88[TSI][hapmap]
rs763183	0.94[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap]
rs763184	0.94[CEU][hapmap];0.88[CHB][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3765479	TRO	cis	lymphoblastoid	seeQTL
rs3765479	TRO	cis	multi-tissue	Pritchard

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:54948400-54961800	Weak transcription	HSMMtube	muscle
2	chrX:54948400-54963000	Weak transcription	Gastric	stomach
3	chrX:54949800-54961000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chrX:54951800-54961000	Weak transcription	NH-A	brain
5	chrX:54953800-54961000	Weak transcription	Fetal Intestine Large	intestine
6	chrX:54953800-54964600	Weak transcription	Psoas Muscle	Psoas
7	chrX:54955600-54963400	Weak transcription	Brain Cingulate Gyrus	brain
8	chrX:54955600-54964000	Strong transcription	Skeletal Muscle Female	skeletal muscle
9	chrX:54955800-54963000	Strong transcription	Adipose Nuclei	Adipose
10	chrX:54956200-54960600	Weak transcription	Spleen	Spleen
11	chrX:54956400-54961600	Weak transcription	Fetal Kidney	kidney
12	chrX:54956600-54961600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chrX:54956800-54965600	Weak transcription	Brain Hippocampus Middle	brain
14	chrX:54957200-54964800	Strong transcription	Liver	Liver
15	chrX:54957400-54961200	Strong transcription	Fetal Stomach	stomach
16	chrX:54957400-54962400	Weak transcription	Ovary	ovary
17	chrX:54957600-54961600	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chrX:54957800-54969000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chrX:54958200-54960800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chrX:54958200-54961200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chrX:54958600-54963600	Weak transcription	Brain Angular Gyrus	brain
22	chrX:54959000-54962600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chrX:54959000-54963000	Weak transcription	Fetal Brain Female	brain
24	chrX:54959400-54962200	Strong transcription	Brain Germinal Matrix	brain
25	chrX:54960200-54961600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chrX:54960200-54961800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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