Variant report

Variant	rs9919605
Chromosome Location	chr11:9932063-9932064
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:9928185..9930607-chr11:9931281..9933826,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10770072	0.85[CHB][hapmap];0.90[ASN][1000 genomes]
rs10770074	0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs10840316	0.80[LWK][hapmap];0.81[AFR][1000 genomes]
rs11042541	0.93[CHB][hapmap];0.84[JPT][hapmap]
rs11042549	0.91[JPT][hapmap]
rs12360818	0.90[CEU][hapmap];0.92[CHB][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12365540	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12365901	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12796169	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.91[TSI][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1546541	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1546542	0.83[ASW][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35396321	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4334006	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4445629	0.86[AFR][1000 genomes]
rs4498988	0.91[JPT][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4616018	0.91[JPT][hapmap]
rs4910073	0.82[AFR][1000 genomes]
rs4910076	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4910082	0.91[JPT][hapmap]
rs4910083	0.91[JPT][hapmap]
rs6483809	0.93[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6483811	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67701335	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7102482	0.83[GIH][hapmap];0.91[JPT][hapmap]
rs7105337	0.93[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7107328	0.87[MKK][hapmap];0.93[YRI][hapmap]
rs7125054	0.91[JPT][hapmap]
rs7126063	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7130681	0.93[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap]
rs7130923	0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7131516	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7350496	0.80[AMR][1000 genomes]
rs7925651	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7929338	0.87[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7930281	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.91[TSI][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7948688	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7950655	0.82[ASN][1000 genomes]
rs9919608	0.96[ASN][1000 genomes]
rs9919609	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9919617	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9919633	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv2762895	chr11:9849511-9954549	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1041148	chr11:9927980-9954537	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv976477	chr11:9929222-9945590	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv471749	chr11:9929899-9934252	Weak transcription ZNF genes & repeats Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9878800-9952200	Weak transcription	Aorta	Aorta
2	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
3	chr11:9904000-9937000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr11:9910000-9954600	Weak transcription	Pancreas	Pancrea
5	chr11:9915000-9937200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr11:9916600-9932600	Weak transcription	Fetal Intestine Small	intestine
7	chr11:9916800-9944400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr11:9916800-9944400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr11:9917000-9937200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr11:9917600-9933200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:9917600-9934200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr11:9917600-9951800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr11:9917600-9952400	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr11:9917800-9933200	Weak transcription	Primary hematopoietic stem cells	blood
15	chr11:9917800-9952600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr11:9920000-9933200	Weak transcription	Fetal Stomach	stomach
17	chr11:9921400-9934400	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr11:9923400-9943600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr11:9923400-9952200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr11:9924000-9944400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr11:9925200-9944400	Weak transcription	Ovary	ovary
22	chr11:9925400-9951000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr11:9925400-9952200	Weak transcription	Lung	lung
24	chr11:9927800-9944400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr11:9928000-9944200	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr11:9928000-9944400	Weak transcription	Brain Anterior Caudate	brain
27	chr11:9928400-9944200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr11:9928600-9938200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr11:9928600-9944200	Weak transcription	Adipose Nuclei	Adipose
30	chr11:9929000-9935600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr11:9929000-9944200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr11:9929000-9944400	Weak transcription	Liver	Liver
33	chr11:9929000-9952000	Weak transcription	Fetal Lung	lung
34	chr11:9929200-9941000	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr11:9929200-9966800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr11:9929400-9933200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr11:9929400-9934000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr11:9929400-9936000	Weak transcription	NHEK	skin
39	chr11:9929400-9944400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr11:9929600-9935400	Weak transcription	NHLF	lung
41	chr11:9929600-9936200	Weak transcription	NH-A	brain
42	chr11:9929600-9944200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr11:9929600-9944400	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr11:9929600-9944400	Weak transcription	HSMM	muscle
45	chr11:9929600-9944400	Weak transcription	Osteobl	bone
46	chr11:9929600-9953000	Weak transcription	HSMMtube	muscle
47	chr11:9929800-9935400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr11:9930000-9938600	Weak transcription	Fetal Kidney	kidney
49	chr11:9930600-9935400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr11:9930600-9944200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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