Variant report

Variant	rs10852164
Chromosome Location	chr15:92498444-92498445
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:92495196..92498509-chr15:92585959..92588143,4	MCF-7	breast:
2	chr15:92486176..92494051-chr15:92494562..92499303,11	MCF-7	breast:
3	chr15:92488195..92489990-chr15:92496310..92499101,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11074027	0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs11631731	0.91[ASN][1000 genomes]
rs12905744	0.85[CEU][hapmap]
rs2138849	0.86[CHD][hapmap]
rs2176452	0.81[CEU][hapmap];0.86[CHD][hapmap]
rs4932593	0.81[CEU][hapmap];0.83[CHD][hapmap]
rs7165760	0.81[CEU][hapmap]
rs7172099	0.83[CEU][hapmap]
rs7172159	0.81[CEU][hapmap];0.90[CHD][hapmap];0.88[MEX][hapmap]
rs8027160	0.93[CHD][hapmap]
rs8040046	0.83[CEU][hapmap];0.83[CHD][hapmap]

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	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10852164	SEMA4B	cis	parietal	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92489200-92499400	Enhancers	Brain Hippocampus Middle	brain
2	chr15:92491200-92499000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr15:92491600-92500600	Weak transcription	Psoas Muscle	Psoas
4	chr15:92491800-92499000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr15:92492000-92499200	Weak transcription	Aorta	Aorta
6	chr15:92492000-92499200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr15:92492000-92499400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:92492000-92499400	Weak transcription	Brain Anterior Caudate	brain
9	chr15:92492200-92499000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr15:92492200-92499000	Weak transcription	Osteobl	bone
11	chr15:92492400-92499000	Enhancers	NHEK	skin
12	chr15:92492400-92499400	Weak transcription	NHLF	lung
13	chr15:92493200-92500200	Enhancers	HMEC	breast
14	chr15:92493800-92499000	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr15:92493800-92499200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr15:92493800-92499200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr15:92494000-92499200	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr15:92494000-92499400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr15:92494400-92499000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr15:92494400-92499000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr15:92494600-92499000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr15:92494600-92499000	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:92494600-92499000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr15:92494600-92499200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr15:92494600-92499400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr15:92494800-92499000	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr15:92495000-92498600	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr15:92495000-92498600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
29	chr15:92495400-92505400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr15:92495600-92499200	Enhancers	Stomach Mucosa	stomach
31	chr15:92495600-92499400	Enhancers	Hela-S3	cervix
32	chr15:92495600-92499600	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr15:92496000-92498800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:92496000-92499000	Enhancers	Spleen	Spleen
35	chr15:92496000-92499200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:92496000-92499800	Enhancers	Fetal Heart	heart
37	chr15:92496000-92500800	Enhancers	Left Ventricle	heart
38	chr15:92496000-92500800	Enhancers	Right Atrium	heart
39	chr15:92496400-92500800	Enhancers	Lung	lung
40	chr15:92496800-92500200	Enhancers	Right Ventricle	heart
41	chr15:92497000-92499400	Weak transcription	Fetal Muscle Trunk	muscle
42	chr15:92497000-92499800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:92497000-92499800	Enhancers	Esophagus	oesophagus
44	chr15:92497000-92500000	Enhancers	Adipose Nuclei	Adipose
45	chr15:92497000-92500200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr15:92497200-92499000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr15:92497600-92499600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr15:92497800-92498600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr15:92497800-92499400	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr15:92498000-92498600	Enhancers	Brain Cingulate Gyrus	brain

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