Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:33401819..33404560-chr22:33409923..33412850,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TIMP3-7	chr22:33411237-33411446	NONHSAT084995

Variant related genes	Relation type
ENSG00000185666	Chromatin interaction

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

rs_ID	r²[population]
rs10483168	1.00[JPT][hapmap]
rs11089599	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs11703516	1.00[JPT][hapmap]
rs11703670	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs11703699	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11704652	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs12158631	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap]
rs133928	1.00[CHB][hapmap]
rs137543	1.00[CHB][hapmap]
rs137559	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs137561	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17779789	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs2042793	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2042794	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs2081727	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs25112	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs5994652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5994654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs5998677	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5998679	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5998681	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5998685	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5998689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5998697	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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	nsv531568	chr22:33336868-33480272	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv531587	chr22:33346710-33809338	Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs5998693	LIF	cis	parietal	SCAN
rs5998693	SYN3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:33402400-33414200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr22:33402600-33419400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr22:33402800-33414600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr22:33403000-33420000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr22:33403400-33414000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr22:33403600-33415600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr22:33403800-33414600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr22:33403800-33417600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr22:33405400-33414600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr22:33406400-33414600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr22:33407400-33417000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr22:33408200-33411400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr22:33410200-33413000	Weak transcription	HepG2	liver
14	chr22:33410400-33417200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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