Variant report

Variant	rs1779228
Chromosome Location	chr10:18474727-18474728
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12413195	0.89[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12777936	0.86[CHB][hapmap];0.83[CHD][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs16916928	0.86[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1757205	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1757206	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1757207	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1757210	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1757211	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1779226	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1779227	0.86[CHB][hapmap];0.83[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1779235	0.89[ASN][1000 genomes]
rs1779238	0.82[EUR][1000 genomes]
rs1779240	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7067916	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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	nsv1039174	chr10:18474463-18493676	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1779228	STAM	cis	lymphoblastoid	seeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18468400-18486000	Weak transcription	Fetal Intestine Large	intestine
2	chr10:18469000-18486000	Weak transcription	Aorta	Aorta
3	chr10:18469200-18486000	Weak transcription	Fetal Intestine Small	intestine
4	chr10:18469400-18479000	Weak transcription	Right Ventricle	heart
5	chr10:18469400-18491200	Weak transcription	Primary hematopoietic stem cells	blood
6	chr10:18469600-18474800	Weak transcription	Brain Substantia Nigra	brain
7	chr10:18469600-18483200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:18469600-18486000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr10:18469800-18479200	Weak transcription	Left Ventricle	heart
10	chr10:18470200-18484000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr10:18470200-18484400	Weak transcription	Right Atrium	heart
12	chr10:18471200-18483000	Weak transcription	Fetal Stomach	stomach
13	chr10:18471400-18483600	Weak transcription	Fetal Lung	lung
14	chr10:18471600-18481000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:18473200-18475000	Enhancers	Stomach Smooth Muscle	stomach
16	chr10:18473400-18475200	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr10:18473600-18475200	Enhancers	Pancreas	Pancrea
18	chr10:18473600-18475400	Strong transcription	Cortex derived primary cultured neurospheres	brain
19	chr10:18473600-18477400	Enhancers	Ovary	ovary
20	chr10:18473800-18475000	Enhancers	Rectal Smooth Muscle	rectum
21	chr10:18474000-18475000	Enhancers	Colon Smooth Muscle	Colon
22	chr10:18474400-18474800	Enhancers	Fetal Heart	heart
23	chr10:18474600-18475000	Enhancers	Brain Inferior Temporal Lobe	brain

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