Variant report

Variant	rs11636442
Chromosome Location	chr15:34457239-34457240
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10775222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10851950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10851952	0.92[CEU][hapmap];0.86[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.87[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];0.95[TSI][hapmap]
rs11072998	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11073010	0.81[AMR][1000 genomes]
rs11635964	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11852537	0.81[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs11854686	0.81[ASN][1000 genomes]
rs11857205	0.81[ASN][1000 genomes]
rs11857684	0.93[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs12437551	0.88[CEU][hapmap];0.93[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.82[LWK][hapmap];0.82[MEX][hapmap];0.85[MKK][hapmap];0.83[TSI][hapmap]
rs12591181	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12594077	0.93[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs12917397	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs16958829	0.81[CEU][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs16958835	0.83[CHD][hapmap]
rs16958848	0.91[ASN][1000 genomes]
rs1836977	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1836978	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1978810	0.93[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs2339368	0.94[ASN][1000 genomes]
rs2339369	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28538047	0.91[ASN][1000 genomes]
rs28768700	0.84[ASN][1000 genomes]
rs28813796	0.91[ASN][1000 genomes]
rs4780226	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57530092	0.92[ASN][1000 genomes]
rs57715967	0.81[ASN][1000 genomes]
rs59635553	0.92[ASN][1000 genomes]
rs60749797	0.91[ASN][1000 genomes]
rs6495558	0.81[ASN][1000 genomes]
rs6495580	0.92[ASN][1000 genomes]
rs6495622	0.81[CEU][hapmap];0.93[GIH][hapmap];0.89[TSI][hapmap]
rs7168761	0.80[CHD][hapmap]
rs7172633	0.92[ASN][1000 genomes]
rs7173244	0.91[ASN][1000 genomes]
rs7174442	0.81[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.92[ASN][1000 genomes]
rs7174586	0.91[ASN][1000 genomes]
rs7175168	0.94[ASN][1000 genomes]
rs7178002	0.86[CHD][hapmap]
rs7178203	0.81[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.92[ASN][1000 genomes]
rs7178988	0.93[CHB][hapmap];0.90[JPT][hapmap]
rs7181687	0.93[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap]
rs7181902	0.93[CHB][hapmap];0.94[CHD][hapmap];0.89[JPT][hapmap];0.82[MEX][hapmap]
rs73376164	0.94[ASN][1000 genomes]
rs73376178	0.81[ASN][1000 genomes]
rs73376181	0.81[ASN][1000 genomes]
rs73376192	0.81[ASN][1000 genomes]
rs73376193	0.81[ASN][1000 genomes]
rs73376196	0.81[ASN][1000 genomes]
rs73378128	0.92[ASN][1000 genomes]
rs73378138	0.92[ASN][1000 genomes]
rs73378141	0.90[ASN][1000 genomes]
rs7497840	0.90[ASN][1000 genomes]
rs7497951	0.91[ASN][1000 genomes]
rs8025406	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8025730	0.93[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs8027499	0.92[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap]
rs8028027	0.82[AMR][1000 genomes]
rs8028932	0.92[ASN][1000 genomes]
rs8028950	0.92[ASN][1000 genomes]
rs8031102	0.96[ASN][1000 genomes]
rs8035493	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8036468	0.93[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.84[JPT][hapmap];0.82[MEX][hapmap];0.80[TSI][hapmap]
rs8040071	0.83[CHD][hapmap]
rs8040732	0.80[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.96[ASN][1000 genomes]
rs8040861	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8043216	1.00[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9920654	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9972505	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv3507159	chr15:34456709-34485891	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
3	esv3507160	chr15:34456709-34485891	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11636442	NOLA3	cis	multi-tissue	Pritchard
rs11636442	NOP10	cis	cerebellum	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34445400-34459600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr15:34445800-34459400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
3	chr15:34452000-34457800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
4	chr15:34453600-34461000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:34453600-34474600	Weak transcription	Colon Smooth Muscle	Colon
6	chr15:34453800-34458400	Weak transcription	Psoas Muscle	Psoas
7	chr15:34454000-34458200	Weak transcription	Right Ventricle	heart
8	chr15:34454000-34458400	Weak transcription	NH-A	brain
9	chr15:34454000-34477400	Weak transcription	HSMM	muscle
10	chr15:34454200-34458000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr15:34454200-34497800	Weak transcription	Osteobl	bone
12	chr15:34454600-34501200	Weak transcription	Colonic Mucosa	Colon
13	chr15:34454800-34465600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:34454800-34501000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr15:34455000-34457400	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr15:34455000-34458200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr15:34455000-34458200	Weak transcription	Esophagus	oesophagus
18	chr15:34455000-34458400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr15:34455000-34458400	Weak transcription	Liver	Liver
20	chr15:34455000-34458400	Weak transcription	Left Ventricle	heart
21	chr15:34455000-34458400	Weak transcription	HepG2	liver
22	chr15:34455000-34458800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:34455000-34459600	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr15:34455000-34460600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:34455000-34460800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr15:34455000-34461400	Weak transcription	Primary T cells from cord blood	blood
27	chr15:34455000-34463400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr15:34455200-34457800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr15:34455200-34458000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr15:34455200-34458000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr15:34455200-34458200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr15:34455200-34458200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:34455200-34458200	Weak transcription	Aorta	Aorta
34	chr15:34455200-34458200	Weak transcription	Placenta	Placenta
35	chr15:34455200-34458200	Weak transcription	Fetal Stomach	stomach
36	chr15:34455200-34458200	Weak transcription	Gastric	stomach
37	chr15:34455200-34458400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr15:34455200-34458400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr15:34455200-34458400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr15:34455200-34458400	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr15:34455200-34458400	Weak transcription	Fetal Muscle Trunk	muscle
42	chr15:34455200-34458400	Weak transcription	Lung	lung
43	chr15:34455200-34458600	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr15:34455200-34458600	Weak transcription	Fetal Thymus	thymus
45	chr15:34455200-34458800	Weak transcription	HUVEC	blood vessel
46	chr15:34455200-34459000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:34455200-34459200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:34455200-34459800	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr15:34455200-34460400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr15:34455200-34460600	Weak transcription	Fetal Muscle Leg	muscle

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