Variant report

Variant	rs11855906
Chromosome Location	chr15:41552782-41552783
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	chr15:41546898..41548900-chr15:41550634..41552926,2	K562	blood:

Variant related genes	Relation type
ENSG00000187446	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10851403	0.82[EUR][1000 genomes]
rs11856169	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13329235	0.81[EUR][1000 genomes]
rs13329579	0.81[EUR][1000 genomes]
rs16971726	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28374715	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28382348	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28493087	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28524914	0.86[EUR][1000 genomes]
rs28554139	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28671712	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28827035	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs513280	0.81[EUR][1000 genomes]
rs72737786	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72737792	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72737793	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72739609	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8038983	0.82[EUR][1000 genomes]
rs8043237	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]

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	nsv1045455	chr15:41536624-41620534	Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs11855906	NDUFAF1	cis	Thyroid	GTEx
rs11855906	NDUFAF1	cis	lung	GTEx
rs11855906	LOC729082	Cis_1M	lymphoblastoid	RTeQTL
rs11855906	OIP5-AS1	cis	Artery Tibial	GTEx
rs11855906	NDUFAF1	Cis_1M	lymphoblastoid	RTeQTL
rs11855906	NDUFAF1	cis	Esophagus Muscularis	GTEx
rs11855906	NDUFAF1	cis	Muscle Skeletal	GTEx
rs11855906	NDUFAF1	cis	Heart Left Ventricle	GTEx
rs11855906	OIP5-AS1	cis	Adipose Subcutaneous	GTEx
rs11855906	KRTAP4-7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41524200-41554800	Weak transcription	Fetal Thymus	thymus
2	chr15:41524200-41555800	Weak transcription	Aorta	Aorta
3	chr15:41524200-41563800	Weak transcription	Small Intestine	intestine
4	chr15:41524200-41575800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:41524400-41555800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr15:41524800-41563800	Weak transcription	Esophagus	oesophagus
7	chr15:41525200-41554200	Weak transcription	Fetal Brain Female	brain
8	chr15:41525200-41556400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:41525200-41575400	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr15:41525400-41556200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr15:41525400-41556800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr15:41525800-41554800	Weak transcription	Dnd41	blood
13	chr15:41525800-41575200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr15:41526000-41554800	Weak transcription	Brain Angular Gyrus	brain
15	chr15:41526200-41554800	Weak transcription	Colon Smooth Muscle	Colon
16	chr15:41533800-41554600	Weak transcription	Brain Anterior Caudate	brain
17	chr15:41533800-41555000	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr15:41534000-41555200	Weak transcription	Brain Germinal Matrix	brain
19	chr15:41534200-41555200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr15:41534200-41556400	Weak transcription	Spleen	Spleen
21	chr15:41536600-41573600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr15:41536800-41555000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr15:41536800-41555200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr15:41537200-41553000	Weak transcription	Colonic Mucosa	Colon
25	chr15:41537200-41555000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr15:41537400-41555000	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr15:41537400-41570800	Weak transcription	Ovary	ovary
28	chr15:41537600-41562800	Weak transcription	Lung	lung
29	chr15:41537800-41554600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr15:41538200-41555000	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr15:41539400-41555000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:41539400-41555800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr15:41541600-41554800	Weak transcription	Thymus	Thymus
34	chr15:41542600-41554800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr15:41542600-41555000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr15:41542600-41555000	Weak transcription	NHLF	lung
37	chr15:41542800-41554800	Weak transcription	NH-A	brain
38	chr15:41542800-41555000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:41542800-41572000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr15:41543000-41575200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr15:41544600-41553400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr15:41545000-41554400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:41545000-41554600	Weak transcription	Left Ventricle	heart
44	chr15:41545000-41571400	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr15:41547000-41554400	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr15:41547800-41553600	Enhancers	HepG2	liver
47	chr15:41549000-41554800	Weak transcription	Fetal Kidney	kidney
48	chr15:41549200-41555400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr15:41549200-41575200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr15:41549800-41556200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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