Variant report

Variant	rs11163835
Chromosome Location	chr1:84244210-84244211
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10158343	0.81[ASN][1000 genomes]
rs1040576	0.84[ASN][1000 genomes]
rs10430047	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10430048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10430063	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10430064	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10465742	0.81[ASN][1000 genomes]
rs10489502	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10489503	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10489504	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10489506	0.85[ASN][1000 genomes]
rs10489507	0.81[ASN][1000 genomes]
rs10782820	0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10874419	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10874420	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10874421	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10874422	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163826	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11163828	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11163829	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11163830	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11163832	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163833	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163837	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163838	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163839	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163840	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11163841	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11163842	0.82[CEU][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163847	0.81[ASN][1000 genomes]
rs11163848	0.81[ASN][1000 genomes]
rs11163850	0.81[ASN][1000 genomes]
rs12028642	0.81[ASN][1000 genomes]
rs12029461	0.81[ASN][1000 genomes]
rs12033157	0.81[ASN][1000 genomes]
rs12035289	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12041369	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12044606	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12045391	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12048434	0.86[ASN][1000 genomes]
rs12057556	0.84[ASN][1000 genomes]
rs12059428	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12069168	0.85[ASN][1000 genomes]
rs12080974	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12085122	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12087099	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12088221	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12088867	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12091588	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12092736	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12093748	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17129275	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17129297	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17129321	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17129344	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17129346	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17129416	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17129475	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1951928	0.81[ASN][1000 genomes]
rs28476757	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35299117	0.81[ASN][1000 genomes]
rs36017423	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4001468	0.84[ASN][1000 genomes]
rs4140461	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55958267	0.85[ASN][1000 genomes]
rs60860789	0.93[ASN][1000 genomes]
rs61766224	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61767991	0.81[ASN][1000 genomes]
rs61767992	0.81[ASN][1000 genomes]
rs714280	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs717234	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72952444	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74094961	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs742779	0.84[ASN][1000 genomes]
rs7529582	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs969125	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs969126	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs997869	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11163835	LPHN2	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84241800-84246200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:84242600-84245000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr1:84242800-84245400	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr1:84242800-84247000	Weak transcription	Liver	Liver
5	chr1:84243000-84244600	Enhancers	Brain Germinal Matrix	brain
6	chr1:84243000-84245200	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr1:84243000-84249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr1:84243600-84245000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr1:84243600-84245600	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr1:84243800-84244800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr1:84243800-84244800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr1:84243800-84245000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr1:84244000-84244800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr1:84244000-84246200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr1:84244200-84244800	Enhancers	Fetal Brain Female	brain
16	chr1:84244200-84245200	Weak transcription	Fetal Brain Male	brain

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