Variant report

Variant	rs10898452
Chromosome Location	chr11:85958387-85958388
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:85955907..85958640-chr11:86011728..86014261,2	MCF-7	breast:
2	chr11:85957358..85959718-chr11:85962458..85964568,2	K562	blood:
3	chr11:85957956..85960491-chr11:85965054..85967049,2	K562	blood:
4	chr11:85951079..85952582-chr11:85956879..85959583,2	K562	blood:
5	chr11:85867474..85869352-chr11:85956593..85958446,2	K562	blood:
6	chr11:85958310..85960739-chr11:85984735..85987503,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000074266	Chromatin interaction
ENSG00000149196	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10751137	0.91[EUR][1000 genomes]
rs10792841	0.99[EUR][1000 genomes]
rs10792842	0.99[EUR][1000 genomes]
rs10792843	0.94[EUR][1000 genomes]
rs10898448	0.84[EUR][1000 genomes]
rs10898449	0.87[EUR][1000 genomes]
rs10898457	0.99[EUR][1000 genomes]
rs10898458	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10898459	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10898461	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10898462	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10898463	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11234594	0.99[EUR][1000 genomes]
rs11234596	0.82[EUR][1000 genomes]
rs12284085	0.83[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1466804	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1497725	0.86[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1497726	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1874694	0.95[EUR][1000 genomes]
rs2270680	0.86[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2270681	0.86[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs3758881	0.89[EUR][1000 genomes]
rs6592279	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7101712	0.93[EUR][1000 genomes]
rs7120070	0.91[EUR][1000 genomes]
rs7120222	0.97[EUR][1000 genomes]
rs7924472	0.91[EUR][1000 genomes]
rs7942971	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7950820	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7951030	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7951188	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs974144	0.99[EUR][1000 genomes]
rs991435	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1050948	chr11:85756325-85968665	Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv541117	chr11:85756325-85968665	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv832223	chr11:85845315-86015957	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10898452	EED	Cis_1M	lymphoblastoid	RTeQTL
rs10898452	C11orf73	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85955000-85958400	Active TSS	Aorta	Aorta
2	chr11:85955200-85958400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr11:85955200-85958600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr11:85955400-85958400	Active TSS	Stomach Smooth Muscle	stomach
5	chr11:85955400-85958400	Active TSS	GM12878-XiMat	blood
6	chr11:85955400-85958400	Active TSS	Hela-S3	cervix
7	chr11:85956400-85958400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr11:85957000-85958800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:85957000-85958800	Flanking Active TSS	Dnd41	blood
10	chr11:85957000-85963800	Weak transcription	Spleen	Spleen
11	chr11:85957200-85958800	Weak transcription	Left Ventricle	heart
12	chr11:85957200-85959200	Weak transcription	Gastric	stomach
13	chr11:85957200-85959800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr11:85957200-85959800	Weak transcription	Pancreas	Pancrea
15	chr11:85957200-85963800	Weak transcription	Lung	lung
16	chr11:85957200-85972400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr11:85957200-85972400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr11:85957200-85972400	Weak transcription	Esophagus	oesophagus
19	chr11:85957200-85995400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr11:85957400-85958400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr11:85957400-85958400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr11:85957400-85958400	Enhancers	Fetal Intestine Small	intestine
23	chr11:85957400-85959200	Enhancers	Brain Angular Gyrus	brain
24	chr11:85957400-85959600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
25	chr11:85957400-85959600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr11:85957400-85959800	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr11:85957400-85960000	Enhancers	Small Intestine	intestine
28	chr11:85957400-85961400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr11:85957400-85961600	Enhancers	Primary B cells from peripheral blood	blood
30	chr11:85957400-85962400	Weak transcription	Placenta	Placenta
31	chr11:85957400-85967600	Weak transcription	Fetal Muscle Trunk	muscle
32	chr11:85957400-85985600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr11:85957400-86008000	Weak transcription	Psoas Muscle	Psoas
34	chr11:85957600-85958400	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr11:85957600-85958400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr11:85957600-85958400	Enhancers	Primary hematopoietic stem cells	blood
37	chr11:85957600-85958400	Enhancers	Brain Germinal Matrix	brain
38	chr11:85957600-85958600	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr11:85957600-85959000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr11:85957600-85959000	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr11:85957600-85959200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr11:85957600-85959400	Enhancers	Fetal Heart	heart
43	chr11:85957600-85959400	Enhancers	Rectal Mucosa Donor 31	rectum
44	chr11:85957600-85959600	Enhancers	Liver	Liver
45	chr11:85957600-85961200	Enhancers	Primary T cells from cord blood	blood
46	chr11:85957600-85961600	Enhancers	Primary T killer memory cells from peripheral blood	blood
47	chr11:85957800-85958400	Enhancers	Fetal Stomach	stomach
48	chr11:85957800-85958400	Enhancers	NH-A	brain
49	chr11:85957800-85958600	Enhancers	Cortex derived primary cultured neurospheres	brain
50	chr11:85957800-85958600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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