Variant report

Variant	rs12886362
Chromosome Location	chr14:24791571-24791572
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:24737357..24740167-chr14:24791316..24793649,2	MCF-7	breast:
2	chr14:24789439..24822082-chr14:24898039..24913135,99	MCF-7	breast:
3	chr14:24791358..24808812-chr14:24895309..24913599,55	K562	blood:
4	chr14:24700462..24703235-chr14:24790000..24792111,3	MCF-7	breast:
5	chr14:24781460..24810019-chr14:24892340..24914262,110	MCF-7	breast:
6	chr14:24790689..24792926-chr14:24801432..24803084,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139899	Chromatin interaction
ENSG00000100445	Chromatin interaction
ENSG00000100949	Chromatin interaction
ENSG00000129467	Chromatin interaction
ENSG00000100938	Chromatin interaction
ENSG00000129559	Chromatin interaction
ENSG00000100441	Chromatin interaction
ENSG00000255526	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11158632	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11158634	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11158635	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1131941	0.86[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2144494	0.85[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2224122	0.86[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2224123	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2281472	0.82[EUR][1000 genomes]
rs2516564	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2748543	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3181384	0.85[CEU][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4280164	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4366641	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4374085	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4981503	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4981504	1.00[CEU][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041336	chr14:24726564-25527319	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542000	chr14:24726564-25527319	Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv901500	chr14:24765622-24793762	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	n/a
4	nsv901501	chr14:24771285-24793762	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	n/a
5	nsv564059	chr14:24776401-24796813	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv564060	chr14:24776401-24809795	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12886362	LTB4R	cis	Thyroid	GTEx
rs12886362	LTB4R	cis	lung	GTEx

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:24784600-24796400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr14:24784800-24796600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr14:24786200-24801600	Weak transcription	Left Ventricle	heart
4	chr14:24786400-24792200	Weak transcription	Esophagus	oesophagus
5	chr14:24787000-24801200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr14:24787200-24796400	Weak transcription	Osteobl	bone
7	chr14:24787800-24793600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr14:24788000-24792000	Weak transcription	Right Ventricle	heart
9	chr14:24788400-24801000	Weak transcription	Gastric	stomach
10	chr14:24790400-24796400	Weak transcription	Colonic Mucosa	Colon
11	chr14:24790600-24794400	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr14:24790800-24791600	Strong transcription	Lung	lung
13	chr14:24790800-24791800	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr14:24790800-24792200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr14:24790800-24792200	Bivalent Enhancer	HepG2	liver
16	chr14:24790800-24792600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr14:24790800-24792600	Enhancers	Placenta	Placenta
18	chr14:24790800-24793200	Strong transcription	Spleen	Spleen
19	chr14:24790800-24795200	Strong transcription	Adipose Nuclei	Adipose
20	chr14:24791000-24791800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr14:24791200-24791600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr14:24791200-24792400	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr14:24791400-24791600	Enhancers	K562	blood
24	chr14:24791400-24793200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr14:24791400-24794200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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