Variant report

Variant	rs11159350
Chromosome Location	chr14:78781111-78781112
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11159348	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11159352	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12880553	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1523131	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882811	0.95[CEU][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1882812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882815	0.85[CHB][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882816	0.83[GIH][hapmap]
rs2205163	0.83[CHD][hapmap]
rs2205164	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4503718	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4903739	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4903742	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4903743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6574432	0.84[EUR][1000 genomes]
rs7140340	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7144427	0.83[CHD][hapmap]
rs7148087	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7149016	0.83[CHD][hapmap]
rs7152608	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8018122	1.00[CHB][hapmap]
rs8021038	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs926099	0.81[GIH][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs986980	0.83[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832837	chr14:78766805-78946526	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv1054051	chr14:78772614-78805311	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11159350	TSHR	cis	parietal	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:78769200-78783200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr14:78774600-78782600	Weak transcription	Fetal Brain Male	brain
3	chr14:78778200-78781200	Enhancers	Brain Substantia Nigra	brain
4	chr14:78778800-78781600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr14:78778800-78781600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr14:78779200-78787000	Enhancers	Brain Germinal Matrix	brain
7	chr14:78779400-78786000	Weak transcription	Brain Anterior Caudate	brain
8	chr14:78779600-78781600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr14:78779600-78782200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr14:78779600-78782800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr14:78779600-78783000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr14:78779800-78782000	Weak transcription	Brain Angular Gyrus	brain
13	chr14:78779800-78782400	Weak transcription	Brain Hippocampus Middle	brain
14	chr14:78780400-78783000	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr14:78780400-78783200	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr14:78780400-78783400	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr14:78780600-78781200	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr14:78780600-78781200	Enhancers	H1 Cell Line	embryonic stem cell
19	chr14:78780600-78783200	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr14:78780600-78783800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr14:78780800-78781600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr14:78780800-78783600	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr14:78780800-78783800	Enhancers	K562	blood
24	chr14:78781000-78783000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr14:78781000-78783600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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