Variant report

Variant	rs999495
Chromosome Location	chr11:8408689-8408690
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:8405491..8409851-chr11:8412424..8416034,4	K562	blood:

Extended variants
information (count: 23 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10840032	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.82[GIH][hapmap];0.81[JPT][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10840033	1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10840037	0.94[CHB][hapmap];0.97[CHD][hapmap];0.81[JPT][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10840041	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11041894	0.80[ASN][1000 genomes]
rs11041895	0.80[ASN][1000 genomes]
rs11041896	0.80[ASN][1000 genomes]
rs11041898	0.80[ASN][1000 genomes]
rs11041899	0.80[ASN][1000 genomes]
rs11041912	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11041927	0.82[CHB][hapmap]
rs11041966	0.87[CHD][hapmap]
rs12222273	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12224971	0.82[CHB][hapmap]
rs12284461	0.96[ASN][1000 genomes]
rs12576010	0.96[ASN][1000 genomes]
rs12576952	0.96[ASN][1000 genomes]
rs2311435	0.96[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4586148	0.82[CHB][hapmap];0.82[CHD][hapmap]
rs59645839	0.97[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs73402046	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7929310	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7939568	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.82[GIH][hapmap];0.81[JPT][hapmap];0.94[MKK][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs999495	LMO1	cis	cerebellum	SCAN
rs999495	CNGA4	cis	cerebellum	SCAN
rs999495	LMO1	cis	parietal	SCAN
rs999495	LYVE1	cis	cerebellum	SCAN
rs999495	STK33	cis	cerebellum	SCAN
rs999495	OR51L1	cis	cerebellum	SCAN
rs999495	OR52W1	cis	parietal	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8406200-8410600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr11:8406600-8409800	Weak transcription	Fetal Stomach	stomach
3	chr11:8406600-8409800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr11:8406600-8410800	Weak transcription	Fetal Kidney	kidney
5	chr11:8406800-8410400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr11:8407000-8410200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:8407600-8411600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr11:8407600-8414200	Enhancers	Fetal Heart	heart
9	chr11:8408000-8409000	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr11:8408000-8411000	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr11:8408000-8411000	Enhancers	Ovary	ovary
12	chr11:8408200-8408800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr11:8408200-8408800	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr11:8408200-8408800	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr11:8408200-8409000	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr11:8408200-8409000	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr11:8408200-8409200	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr11:8408200-8410000	Enhancers	Esophagus	oesophagus
19	chr11:8408200-8410400	Weak transcription	Right Atrium	heart
20	chr11:8408200-8415600	Enhancers	Fetal Lung	lung
21	chr11:8408400-8408800	Enhancers	H9 Cell Line	embryonic stem cell
22	chr11:8408400-8409000	Enhancers	NHEK	skin
23	chr11:8408400-8409200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr11:8408400-8409400	Weak transcription	Fetal Thymus	thymus
25	chr11:8408400-8409600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr11:8408400-8410400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr11:8408400-8410400	Weak transcription	Left Ventricle	heart
28	chr11:8408400-8410800	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr11:8408600-8409000	Enhancers	HUES48 Cell Line	embryonic stem cell
30	chr11:8408600-8409600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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