Variant report

Variant	rs2340029
Chromosome Location	chr8:95183490-95183491
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:95170830..95174047-chr8:95182849..95185604,3	MCF-7	breast:
2	chr8:95181437..95183595-chr8:95195671..95197695,2	MCF-7	breast:
3	chr8:95168326..95171086-chr8:95181952..95185312,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11786144	0.81[GIH][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs1585972	0.96[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1600765	0.81[JPT][hapmap]
rs2340030	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2514809	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs2514810	0.85[CHB][hapmap];0.83[ASN][1000 genomes]
rs2613217	0.96[CEU][hapmap];0.90[MEX][hapmap];0.80[TSI][hapmap]
rs3214050	0.82[ASW][hapmap];0.96[CEU][hapmap];0.89[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.90[MEX][hapmap];0.83[MKK][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55750907	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57403347	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs72670354	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72670357	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7833351	0.80[CHD][hapmap];0.85[ASN][1000 genomes]
rs7842215	0.84[GIH][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2340029	LAPTM4B	cis	parietal	SCAN

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:95140800-95187000	Weak transcription	Small Intestine	intestine
2	chr8:95170200-95190400	Strong transcription	Rectal Mucosa Donor 29	rectum
3	chr8:95173600-95185000	Weak transcription	Colonic Mucosa	Colon
4	chr8:95177800-95183600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr8:95177800-95188400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr8:95177800-95190000	Strong transcription	Fetal Intestine Large	intestine
7	chr8:95179200-95190000	Strong transcription	Duodenum Mucosa	Duodenum
8	chr8:95180000-95183800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr8:95180800-95183800	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr8:95181000-95183600	Enhancers	Stomach Smooth Muscle	stomach
11	chr8:95182000-95185000	Weak transcription	Fetal Intestine Small	intestine
12	chr8:95182000-95185200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr8:95182600-95183800	Enhancers	Primary hematopoietic stem cells	blood
14	chr8:95182600-95184200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr8:95183000-95183600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr8:95183000-95183800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr8:95183000-95183800	Enhancers	GM12878-XiMat	blood
18	chr8:95183000-95184000	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr8:95183200-95183600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr8:95183200-95184000	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr8:95183200-95184400	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr8:95183400-95183600	Enhancers	Aorta	Aorta
23	chr8:95183400-95184000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr8:95183400-95184400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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