Variant report

Variant	rs2196923
Chromosome Location	chr9:92711789-92711790
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	chr9:92710212..92712786-chr9:92722735..92725255,2	MCF-7	breast:
2	chr9:92709715..92711807-chr9:92713362..92716439,3	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10820884	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10820923	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10821065	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821308	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10821358	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10821381	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10992209	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10992338	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10992637	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993051	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10993105	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10993510	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1155647	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1319777	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1561948	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1561949	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1561950	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1866766	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2196921	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2379196	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7025971	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.97[TSI][hapmap];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7036596	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7466044	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7861478	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2196923	C9orf153	cis	cerebellum	SCAN
rs2196923	NFIL3	cis	parietal	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92705600-92719200	Weak transcription	Ovary	ovary
2	chr9:92706000-92723600	Weak transcription	HSMMtube	muscle
3	chr9:92707000-92716200	Weak transcription	Psoas Muscle	Psoas
4	chr9:92707000-92716200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:92708600-92711800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr9:92709000-92713600	Weak transcription	NHDF-Ad	bronchial
7	chr9:92709400-92712000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr9:92709400-92713600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:92709600-92713600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr9:92709600-92714200	Weak transcription	Fetal Stomach	stomach
11	chr9:92711200-92711800	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr9:92711200-92711800	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr9:92711200-92711800	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr9:92711400-92711800	Enhancers	H1 Cell Line	embryonic stem cell
15	chr9:92711400-92711800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:92711400-92711800	Enhancers	H9 Cell Line	embryonic stem cell
17	chr9:92711400-92711800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr9:92711400-92711800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr9:92711400-92711800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr9:92711400-92712000	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr9:92711600-92712000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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