Variant report

Variant	rs16958829
Chromosome Location	chr15:34431457-34431458
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:34427280..34431137-chr15:34431263..34436776,5	K562	blood:
2	chr15:34430630..34433436-chr15:34437800..34440377,2	K562	blood:

Variant related genes	Relation type
ENSG00000134152	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10775222	0.81[CEU][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs10851950	0.87[ASN][1000 genomes]
rs11072998	0.92[ASN][1000 genomes]
rs11635964	0.84[JPT][hapmap]
rs11636442	0.81[CEU][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11852537	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11854686	0.80[ASN][1000 genomes]
rs11857205	0.80[ASN][1000 genomes]
rs11857684	0.96[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12591181	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs12594077	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958835	0.82[ASN][1000 genomes]
rs16958836	0.82[ASN][1000 genomes]
rs16958848	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1836977	0.87[ASN][1000 genomes]
rs1836978	0.86[ASN][1000 genomes]
rs1978810	0.96[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2339368	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2339369	0.92[ASN][1000 genomes]
rs28538047	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28768700	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28813796	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4780226	0.87[ASN][1000 genomes]
rs56936283	0.82[ASN][1000 genomes]
rs57530092	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57715967	0.80[ASN][1000 genomes]
rs59611916	0.82[ASN][1000 genomes]
rs59635553	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60749797	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6495558	0.80[ASN][1000 genomes]
rs6495580	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7166360	0.82[ASN][1000 genomes]
rs7172633	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7173244	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7174442	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7174586	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7175168	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7178203	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7178988	0.96[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap]
rs7181687	0.96[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs7181902	0.96[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs73376156	0.85[ASN][1000 genomes]
rs73376164	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73376168	0.82[ASN][1000 genomes]
rs73376178	0.80[ASN][1000 genomes]
rs73376181	0.80[ASN][1000 genomes]
rs73376192	0.80[ASN][1000 genomes]
rs73376193	0.80[ASN][1000 genomes]
rs73376196	0.80[ASN][1000 genomes]
rs73378128	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73378138	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73378141	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7497840	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7497951	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8025406	0.81[CEU][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs8025730	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8028932	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8028950	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8031102	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8035493	0.81[CEU][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs8040732	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8040861	0.90[ASN][1000 genomes]
rs9920654	0.87[ASN][1000 genomes]
rs9972505	0.96[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]

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	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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16958829	NOP10	cis	Thyroid	GTEx
rs16958829	C15orf29	cis	normal skin	skin_eQTL

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34415400-34434600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr15:34415600-34432800	Weak transcription	Osteobl	bone
3	chr15:34415800-34432800	Weak transcription	NHDF-Ad	bronchial
4	chr15:34416200-34439200	Weak transcription	HUVEC	blood vessel
5	chr15:34417600-34439400	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr15:34417800-34436800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:34419400-34434800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr15:34419400-34441800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr15:34421800-34431600	Weak transcription	HSMM	muscle
10	chr15:34423600-34434600	Weak transcription	Left Ventricle	heart
11	chr15:34424400-34446400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr15:34424800-34431600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr15:34424800-34432400	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr15:34425200-34432400	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr15:34425400-34438200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:34425800-34432200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr15:34425800-34439800	Weak transcription	Brain Hippocampus Middle	brain
18	chr15:34426200-34431800	Weak transcription	Fetal Intestine Large	intestine
19	chr15:34426400-34434600	Weak transcription	Right Ventricle	heart
20	chr15:34427200-34431600	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr15:34427400-34435400	Weak transcription	Fetal Stomach	stomach
22	chr15:34427600-34437000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:34427800-34431800	Weak transcription	NHLF	lung
24	chr15:34427800-34432000	Weak transcription	Fetal Muscle Trunk	muscle
25	chr15:34427800-34434600	Weak transcription	NHEK	skin
26	chr15:34427800-34446400	Weak transcription	Psoas Muscle	Psoas
27	chr15:34428000-34431600	Weak transcription	Fetal Lung	lung
28	chr15:34428000-34434800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr15:34428000-34438400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr15:34428000-34441800	Weak transcription	Esophagus	oesophagus
31	chr15:34428200-34435400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr15:34428400-34432600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr15:34428400-34439800	Weak transcription	Thymus	Thymus
34	chr15:34428600-34432800	Weak transcription	Primary T helper cells fromperipheralblood	blood
35	chr15:34428800-34442400	Weak transcription	Colon Smooth Muscle	Colon
36	chr15:34429000-34442400	Weak transcription	Aorta	Aorta
37	chr15:34429000-34444400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr15:34429200-34431600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr15:34429200-34434600	Weak transcription	Brain Germinal Matrix	brain
40	chr15:34429200-34446200	Strong transcription	Placenta	Placenta
41	chr15:34429400-34433000	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr15:34429400-34439600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr15:34429400-34439600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr15:34429400-34445400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr15:34429400-34445600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr15:34429400-34445800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr15:34429600-34433000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr15:34429600-34434600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr15:34429600-34438200	Weak transcription	Primary hematopoietic stem cells	blood
50	chr15:34429600-34444800	Strong transcription	Adipose Nuclei	Adipose

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