Variant report

Variant	rs10510007
Chromosome Location	chr10:116636721-116636722
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:116636495..116637116-chr10:116889645..116890541,2	MCF-7	breast:
2	chr10:116636107..116637372-chr10:116853048..116853836,4	MCF-7	breast:
3	chr10:116636491..116637413-chr10:116889245..116890241,7	MCF-7	breast:
4	chr10:116635157..116638193-chr10:116696471..116698636,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165832	Chromatin interaction
ENSG00000107518	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1046492	0.92[CEU][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10490908	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11818115	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12765350	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12773943	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12775180	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs17092497	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17092542	0.92[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17721283	0.85[CEU][hapmap];0.87[GIH][hapmap];0.82[EUR][1000 genomes]
rs17794346	0.85[CEU][hapmap];0.87[GIH][hapmap];0.82[EUR][1000 genomes]
rs1966384	0.88[CEU][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2146806	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3180654	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34064819	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34187191	0.81[EUR][1000 genomes]
rs34683721	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35010779	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35622181	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35628210	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs36036948	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41284358	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60820172	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61868018	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7072356	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7072364	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7074729	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7075888	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7093674	0.90[AMR][1000 genomes]
rs7094072	0.88[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs749649	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs7895551	0.95[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7909566	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7909657	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7918253	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7918388	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7923295	0.92[CEU][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv831996	chr10:116601552-116772968	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10510007	TRUB1	cis	cerebellum	SCAN
rs10510007	ATRNL1	cis	Muscle Skeletal	GTEx
rs10510007	TECTB	cis	cerebellum	SCAN
rs10510007	ADRB1	cis	parietal	SCAN
rs10510007	TRUB1	cis	parietal	SCAN

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116589600-116640600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:116609600-116639400	Weak transcription	Pancreas	Pancrea
3	chr10:116611600-116641000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:116617400-116640600	Weak transcription	Fetal Intestine Small	intestine
5	chr10:116619400-116641600	Weak transcription	Aorta	Aorta
6	chr10:116621800-116639600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr10:116621800-116639600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr10:116622000-116639200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr10:116622200-116639000	Weak transcription	A549	lung
10	chr10:116622600-116636800	Weak transcription	Brain Germinal Matrix	brain
11	chr10:116624400-116636800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr10:116624400-116639200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:116631400-116639000	Weak transcription	NHDF-Ad	bronchial
14	chr10:116634400-116637000	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr10:116634600-116637000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr10:116634600-116637200	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr10:116634800-116637000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr10:116635200-116636800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr10:116635200-116636800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr10:116635200-116639000	Weak transcription	Osteobl	bone
21	chr10:116635200-116639200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr10:116635200-116639200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr10:116635200-116639200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr10:116635200-116639400	Weak transcription	Fetal Kidney	kidney
25	chr10:116635200-116639600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr10:116635200-116640600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr10:116635400-116636800	Weak transcription	Primary hematopoietic stem cells	blood
28	chr10:116635400-116637000	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr10:116635400-116637200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr10:116635400-116639200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr10:116635800-116637000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr10:116635800-116637000	Enhancers	Esophagus	oesophagus
33	chr10:116636000-116636800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr10:116636000-116637000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr10:116636000-116637000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
36	chr10:116636200-116636800	Enhancers	Liver	Liver
37	chr10:116636200-116637000	Enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr10:116636200-116637000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:116636200-116637000	Enhancers	NHEK	skin
40	chr10:116636200-116637200	Enhancers	Placenta	Placenta
41	chr10:116636400-116636800	Enhancers	Cortex derived primary cultured neurospheres	brain
42	chr10:116636400-116637000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr10:116636400-116637000	Enhancers	Muscle Satellite Cultured Cells	--
44	chr10:116636400-116637000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr10:116636400-116637000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr10:116636400-116637000	Enhancers	Adipose Nuclei	Adipose
47	chr10:116636400-116637000	Enhancers	Ovary	ovary
48	chr10:116636400-116637000	Enhancers	HMEC	breast
49	chr10:116636400-116637000	Enhancers	HSMM	muscle
50	chr10:116636400-116637000	Enhancers	NH-A	brain

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