Variant report

Variant	rs1927099
Chromosome Location	chr9:72835575-72835576
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	chr9:72830114..72831861-chr9:72833907..72836802,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10125617	0.84[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs1052684	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs10780923	0.81[EUR][1000 genomes]
rs10868720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10868752	0.87[EUR][1000 genomes]
rs10868757	0.84[EUR][1000 genomes]
rs10868775	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10868797	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10868799	0.91[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs10868801	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs10868805	0.84[ASN][1000 genomes]
rs10868806	0.89[ASW][hapmap];0.83[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.89[MEX][hapmap];0.98[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs11142029	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11142098	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11142350	0.91[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs11142378	0.83[ASN][1000 genomes]
rs12344645	0.94[ASN][1000 genomes]
rs1536956	0.91[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs1927102	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1927129	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1927137	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2026136	0.91[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs2182736	0.86[EUR][1000 genomes]
rs2182739	0.91[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs2210086	0.82[EUR][1000 genomes]
rs2309611	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs2309647	0.84[EUR][1000 genomes]
rs3847321	0.80[EUR][1000 genomes]
rs3858107	0.81[EUR][1000 genomes]
rs4375070	0.91[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs4745000	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[ASN][1000 genomes]
rs4745004	0.83[ASN][1000 genomes]
rs7019180	0.92[ASN][1000 genomes]
rs7021420	0.82[EUR][1000 genomes]
rs7027209	0.91[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs7036205	0.91[ASN][1000 genomes]
rs7036266	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7038061	0.84[CEU][hapmap];0.82[YRI][hapmap];0.92[ASN][1000 genomes]
rs7469211	0.84[EUR][1000 genomes]
rs9650766	0.82[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	nsv1047862	chr9:72746875-73138287	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72793000-72842600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:72809600-72837800	Weak transcription	NH-A	brain
3	chr9:72821200-72844800	Weak transcription	HMEC	breast
4	chr9:72827600-72843200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr9:72827800-72841600	Weak transcription	Placenta	Placenta
6	chr9:72828000-72836600	Weak transcription	Right Ventricle	heart
7	chr9:72828000-72837000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr9:72828000-72844000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:72828000-72858800	Weak transcription	Gastric	stomach
10	chr9:72828200-72843200	Weak transcription	Fetal Lung	lung
11	chr9:72828200-72844000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:72828600-72837200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:72828600-72843000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr9:72829000-72841800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr9:72829600-72839200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr9:72829600-72843400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr9:72830200-72836200	Strong transcription	Stomach Smooth Muscle	stomach
18	chr9:72830200-72836600	Weak transcription	Pancreas	Pancrea
19	chr9:72830200-72837200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:72830200-72837200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:72830800-72845200	Weak transcription	Duodenum Mucosa	Duodenum
22	chr9:72831400-72836800	Weak transcription	Brain Angular Gyrus	brain
23	chr9:72831600-72841000	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr9:72832400-72841400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr9:72832400-72848800	Weak transcription	Lung	lung
26	chr9:72833200-72836000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr9:72833200-72836000	Strong transcription	Colon Smooth Muscle	Colon
28	chr9:72833200-72836200	Strong transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:72833200-72839800	Strong transcription	HSMMtube	muscle
30	chr9:72833400-72835800	Strong transcription	HSMM	muscle
31	chr9:72833600-72835600	Strong transcription	Ovary	ovary
32	chr9:72833600-72839400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:72833600-72856800	Weak transcription	Aorta	Aorta
34	chr9:72834200-72835800	Strong transcription	Fetal Muscle Leg	muscle
35	chr9:72834200-72837400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr9:72834200-72837400	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr9:72834400-72836800	Weak transcription	NHDF-Ad	bronchial
38	chr9:72834400-72837000	Weak transcription	NHLF	lung
39	chr9:72834400-72837400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr9:72834400-72843800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr9:72834600-72844000	Weak transcription	Left Ventricle	heart
42	chr9:72835000-72835800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr9:72835200-72835600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr9:72835200-72835600	Enhancers	Osteobl	bone
45	chr9:72835400-72835600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr9:72835400-72835600	Enhancers	Placenta Amnion	Placenta Amnion
47	chr9:72835400-72836000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr9:72835400-72836800	Strong transcription	Adipose Nuclei	Adipose
49	chr9:72835400-72838200	Weak transcription	Psoas Muscle	Psoas

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