Variant report

Variant	rs2363078
Chromosome Location	chr2:30880287-30880288
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:30873034..30877433-chr2:30878993..30882629,5	MCF-7	breast:
2	chr2:30855476..30857973-chr2:30878238..30880495,2	K562	blood:

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10180872	0.82[CEU][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs10189926	0.80[AMR][1000 genomes]
rs10195537	0.82[CEU][hapmap];0.81[TSI][hapmap];0.92[YRI][hapmap];0.82[AMR][1000 genomes]
rs10199517	0.92[YRI][hapmap]
rs10203381	0.82[CEU][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.92[YRI][hapmap]
rs10207070	0.84[ASW][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs10207451	0.82[CEU][hapmap];0.91[YRI][hapmap];0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10208152	0.82[CEU][hapmap];0.92[YRI][hapmap]
rs1026066	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs1031236	0.86[ASN][1000 genomes]
rs11127283	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12185696	0.80[AMR][1000 genomes]
rs12994945	0.83[ASN][1000 genomes]
rs12997116	1.00[ASN][1000 genomes]
rs13013282	1.00[ASN][1000 genomes]
rs13429099	0.83[ASW][hapmap];0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs13430761	0.82[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs1357849	0.92[YRI][hapmap]
rs17323641	0.82[AMR][1000 genomes]
rs17394450	0.84[ASW][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs1869427	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1869431	0.87[LWK][hapmap];0.92[YRI][hapmap]
rs1880540	0.92[YRI][hapmap]
rs1901910	1.00[ASN][1000 genomes]
rs34585086	0.83[ASN][1000 genomes]
rs34658981	0.83[ASN][1000 genomes]
rs35148876	0.83[ASN][1000 genomes]
rs4372952	0.83[ASN][1000 genomes]
rs62142162	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62142164	1.00[ASN][1000 genomes]
rs6713112	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6743856	1.00[ASN][1000 genomes]
rs71444466	0.83[ASN][1000 genomes]
rs9808079	0.92[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533886	chr2:30130019-31068764	ZNF genes & repeats Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2363078	LCLAT1	cis	cerebellum	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:30863600-30882200	Weak transcription	Ovary	ovary
2	chr2:30878400-30881200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:30879000-30884600	Weak transcription	Fetal Muscle Trunk	muscle
4	chr2:30879200-30881000	Enhancers	HSMM	muscle
5	chr2:30879200-30883800	Weak transcription	Psoas Muscle	Psoas
6	chr2:30879200-30884600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr2:30879200-30884600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr2:30879400-30884400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr2:30879400-30885400	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr2:30879600-30883600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr2:30879800-30881400	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr2:30879800-30882800	Weak transcription	Fetal Muscle Leg	muscle
13	chr2:30879800-30884400	Weak transcription	NHDF-Ad	bronchial
14	chr2:30880000-30883600	Weak transcription	HSMMtube	muscle

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