Variant report

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

rs_ID	r²[population]
rs10784917	0.83[ASN][1000 genomes]
rs10784918	0.83[ASN][1000 genomes]
rs11178982	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs11179040	0.80[EUR][1000 genomes]
rs1442187	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1583956	0.88[ASN][1000 genomes]
rs167492	0.94[ASN][1000 genomes]
rs17621741	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs192852	0.94[ASN][1000 genomes]
rs2405507	0.92[ASN][1000 genomes]
rs2772458	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs312264	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs312265	0.93[ASN][1000 genomes]
rs312266	0.94[ASN][1000 genomes]
rs312267	0.88[AFR][1000 genomes]
rs312268	0.88[AFR][1000 genomes]
rs312269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs312272	0.94[ASN][1000 genomes]
rs312277	0.86[AFR][1000 genomes]
rs312278	0.86[AFR][1000 genomes]
rs312279	0.86[AFR][1000 genomes]
rs4768319	0.81[JPT][hapmap]
rs56294359	0.80[EUR][1000 genomes]
rs7970381	0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427909	chr12:41054306-41322257	Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv832380	chr12:41132306-41323961	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Bipolar disorder	22925353	GWAS catalog

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs312273	GXYLT1	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:41226800-41266400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:41232000-41248000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr12:41245800-41248200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr12:41245800-41248400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr12:41246000-41248400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr12:41246400-41248600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr12:41246400-41248600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr12:41247400-41249000	Enhancers	Fetal Brain Male	brain
9	chr12:41247600-41248200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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