Variant report

Variant	rs7334801
Chromosome Location	chr13:48544074-48544075
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs1104351	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12869161	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12874522	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1326133	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1326137	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1327656	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1359616	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1410116	0.84[EUR][1000 genomes]
rs1886977	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1927214	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1998988	0.90[EUR][1000 genomes]
rs2025864	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2094190	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2094193	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2094195	0.86[EUR][1000 genomes]
rs2104481	0.86[EUR][1000 genomes]
rs2148940	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2182373	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2182378	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2406694	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2406796	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2406798	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3862747	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4941618	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4941620	0.86[EUR][1000 genomes]
rs4941624	0.86[EUR][1000 genomes]
rs4942720	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4942721	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4942723	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4942724	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4942732	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4942734	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4942736	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4942740	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4942746	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61973264	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61973265	0.90[EUR][1000 genomes]
rs61973266	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61973307	0.90[EUR][1000 genomes]
rs61973308	0.86[EUR][1000 genomes]
rs61974562	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61974563	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61974564	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61974579	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6561414	0.86[EUR][1000 genomes]
rs6561416	0.90[EUR][1000 genomes]
rs6561421	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6561425	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6561426	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6561438	0.82[EUR][1000 genomes]
rs7323702	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7323821	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7324368	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7325175	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7326381	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7326418	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7329137	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7329266	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7329615	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7332363	0.88[EUR][1000 genomes]
rs7332994	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7335797	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7336170	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7985469	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7990099	0.88[EUR][1000 genomes]
rs7990541	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7991892	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7996051	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7996581	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7998786	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8001032	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8001509	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8002482	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8002847	0.84[EUR][1000 genomes]
rs840428	0.90[EUR][1000 genomes]
rs840429	0.90[EUR][1000 genomes]
rs840432	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs840435	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs840437	0.90[EUR][1000 genomes]
rs840439	0.90[EUR][1000 genomes]
rs9316350	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9316351	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs943066	0.90[EUR][1000 genomes]
rs943067	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9526419	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9526431	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9526441	0.84[EUR][1000 genomes]
rs9526448	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9534884	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9534956	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9562792	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9567988	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933980	chr13:48431000-48557419	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv430556	chr13:48516799-48679099	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7334801	MED4	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48507200-48548800	Weak transcription	Stomach Mucosa	stomach
2	chr13:48514400-48574000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr13:48528000-48545800	Weak transcription	Colon Smooth Muscle	Colon
4	chr13:48532000-48551400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr13:48532200-48565200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr13:48532400-48546000	Weak transcription	Aorta	Aorta
7	chr13:48532400-48559400	Weak transcription	Gastric	stomach
8	chr13:48532400-48565200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr13:48532600-48545800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr13:48532800-48545800	Weak transcription	Brain Substantia Nigra	brain
11	chr13:48533800-48548000	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr13:48534000-48560800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr13:48534200-48545200	Weak transcription	Spleen	Spleen
14	chr13:48534200-48545800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr13:48534200-48573200	Weak transcription	Brain Angular Gyrus	brain
16	chr13:48534400-48544400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr13:48534400-48574400	Weak transcription	Small Intestine	intestine
18	chr13:48534600-48546000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr13:48534600-48550400	Weak transcription	Right Ventricle	heart
20	chr13:48535000-48564800	Weak transcription	NHLF	lung
21	chr13:48535200-48545000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr13:48535200-48552000	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr13:48536000-48550400	Weak transcription	Fetal Heart	heart
24	chr13:48536200-48550000	Weak transcription	NHEK	skin
25	chr13:48536800-48547800	Strong transcription	Liver	Liver
26	chr13:48537200-48544800	Strong transcription	Cortex derived primary cultured neurospheres	brain
27	chr13:48537200-48574200	Weak transcription	Colonic Mucosa	Colon
28	chr13:48537400-48545400	Weak transcription	Pancreas	Pancrea
29	chr13:48537400-48560200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr13:48537400-48574000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr13:48537400-48574400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr13:48538000-48567200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr13:48538400-48547200	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr13:48538400-48551000	Weak transcription	Fetal Brain Male	brain
35	chr13:48538400-48551600	Weak transcription	Brain Hippocampus Middle	brain
36	chr13:48538400-48574000	Weak transcription	Hela-S3	cervix
37	chr13:48538600-48559800	Weak transcription	HUVEC	blood vessel
38	chr13:48538800-48545600	Weak transcription	A549	lung
39	chr13:48538800-48564800	Weak transcription	Brain Germinal Matrix	brain
40	chr13:48539000-48545600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr13:48539400-48551800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr13:48539600-48546000	Weak transcription	Primary hematopoietic stem cells	blood
43	chr13:48539600-48571200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr13:48539800-48545800	Weak transcription	Primary B cells from cord blood	blood
45	chr13:48540000-48574200	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr13:48540200-48545000	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr13:48540200-48545200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr13:48540200-48546200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr13:48540200-48552600	Strong transcription	HUES6 Cell Line	embryonic stem cell
50	chr13:48540200-48559000	Weak transcription	Primary neutrophils fromperipheralblood	blood

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