Variant report

Variant	rs11185780
Chromosome Location	chr10:91363624-91363625
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:91363334..91365541-chr10:91403148..91405149,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232936	Chromatin interaction
ENSG00000249962	Chromatin interaction
ENSG00000152782	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1075374	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10881608	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10881610	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185760	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11185773	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11185790	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185791	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185792	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185793	1.00[CEU][hapmap];0.81[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185794	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185795	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185796	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185797	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185798	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185799	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11185800	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11185801	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185802	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185804	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11185806	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185808	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185809	0.86[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11185810	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11185811	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11185812	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11185819	0.82[JPT][hapmap]
rs12219790	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12774378	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12777243	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1409360	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1815338	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3824603	0.85[ASN][1000 genomes]
rs4294495	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56160723	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7073241	1.00[YRI][hapmap]
rs7079613	1.00[YRI][hapmap]
rs719909	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs730287	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7476027	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7905163	1.00[CEU][hapmap];0.80[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs943125	0.93[AMR][1000 genomes];0.89[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	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11185780	FLJ37201	cis	parietal	SCAN

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91335400-91370800	Weak transcription	A549	lung
2	chr10:91335400-91375600	Weak transcription	NH-A	brain
3	chr10:91343200-91372600	Weak transcription	Primary B cells from cord blood	blood
4	chr10:91343400-91369200	Weak transcription	Brain Angular Gyrus	brain
5	chr10:91344000-91369200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr10:91345000-91392800	Weak transcription	Hela-S3	cervix
7	chr10:91348600-91373200	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr10:91349200-91367600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr10:91349400-91372400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:91351000-91371200	Weak transcription	Brain Anterior Caudate	brain
11	chr10:91351400-91368600	Weak transcription	Gastric	stomach
12	chr10:91351600-91403400	Weak transcription	Esophagus	oesophagus
13	chr10:91351800-91368600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr10:91351800-91373200	Weak transcription	Pancreas	Pancrea
15	chr10:91352200-91369400	Weak transcription	Aorta	Aorta
16	chr10:91352200-91373200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr10:91352200-91373400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr10:91352600-91369600	Weak transcription	Placenta	Placenta
19	chr10:91352600-91373200	Weak transcription	Adipose Nuclei	Adipose
20	chr10:91352600-91403400	Weak transcription	Small Intestine	intestine
21	chr10:91353200-91369200	Weak transcription	Brain Hippocampus Middle	brain
22	chr10:91353200-91369200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr10:91353200-91371600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr10:91353200-91377000	Weak transcription	Lung	lung
25	chr10:91353400-91369200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr10:91353400-91369200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:91353600-91366000	Weak transcription	HMEC	breast
28	chr10:91353600-91369200	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr10:91353600-91369800	Weak transcription	NHDF-Ad	bronchial
30	chr10:91353600-91374000	Weak transcription	HSMM	muscle
31	chr10:91353800-91368600	Weak transcription	Fetal Lung	lung
32	chr10:91353800-91369200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr10:91353800-91369600	Weak transcription	Brain Germinal Matrix	brain
34	chr10:91353800-91403800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr10:91354800-91368600	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr10:91354800-91378000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr10:91356600-91368600	Weak transcription	Fetal Brain Male	brain
38	chr10:91356800-91372000	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr10:91356800-91378200	Weak transcription	Spleen	Spleen
40	chr10:91357800-91373400	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr10:91358600-91368800	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr10:91358600-91369400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:91358600-91377600	Weak transcription	Psoas Muscle	Psoas
44	chr10:91358800-91369200	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr10:91358800-91369600	Weak transcription	Ovary	ovary
46	chr10:91358800-91372000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr10:91359000-91367400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr10:91359200-91367000	Weak transcription	Primary T cells from cord blood	blood
49	chr10:91359200-91368600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr10:91359200-91373200	Weak transcription	NHLF	lung

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