Variant report

Variant	rs10168457
Chromosome Location	chr2:55357427-55357428
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:55354045..55358992-chr2:55359264..55362961,10	K562	blood:
2	chr2:55356561..55359433-chr2:55372018..55374835,2	K562	blood:
3	chr2:55272140..55279868-chr2:55356344..55371606,28	K562	blood:
4	chr2:55356536..55358953-chr2:55366284..55369182,2	K562	blood:
5	chr2:55344212..55347124-chr2:55355193..55359491,3	K562	blood:
6	chr2:55354045..55357806-chr2:55359264..55361491,4	K562	blood:
7	chr2:55347566..55351333-chr2:55355556..55357913,4	K562	blood:

Variant related genes	Relation type
ENSG00000115310	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11681508	0.96[CEU][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11692696	0.92[CEU][hapmap];0.87[MEX][hapmap];0.82[TSI][hapmap];0.89[EUR][1000 genomes]
rs12713287	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12992634	0.94[JPT][hapmap];0.84[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10168457	RTN4	cis	parietal	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55347600-55360600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:55348200-55360600	Weak transcription	Stomach Mucosa	stomach
3	chr2:55348400-55360400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr2:55348600-55360800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr2:55348800-55360400	Weak transcription	NHDF-Ad	bronchial
6	chr2:55349800-55360600	Weak transcription	Fetal Stomach	stomach
7	chr2:55350000-55360600	Weak transcription	Psoas Muscle	Psoas
8	chr2:55350000-55360800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr2:55350000-55360800	Weak transcription	Lung	lung
10	chr2:55350000-55360800	Weak transcription	Ovary	ovary
11	chr2:55351200-55359600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr2:55351400-55360600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr2:55351400-55360600	Weak transcription	HSMMtube	muscle
14	chr2:55351600-55360400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr2:55354800-55360600	Weak transcription	Brain Angular Gyrus	brain
16	chr2:55355400-55360600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr2:55355600-55360600	Weak transcription	Fetal Muscle Leg	muscle
18	chr2:55355800-55360600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr2:55355800-55360600	Weak transcription	Brain Substantia Nigra	brain
20	chr2:55356800-55360400	Weak transcription	Brain Hippocampus Middle	brain
21	chr2:55356800-55360400	Weak transcription	K562	blood
22	chr2:55356800-55360600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr2:55357000-55357600	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr2:55357000-55360200	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr2:55357000-55360600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr2:55357200-55360400	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr2:55357200-55360800	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr2:55357400-55360600	Weak transcription	HepG2	liver

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