Variant report

No.	Distal block	Cell Line	Cell type
1	chr9:100679327..100688755-chr9:100804829..100810921,12	K562	blood:
2	chr9:100797667..100799438-chr9:100803367..100805131,2	MCF-7	breast:
3	chr9:100803503..100806202-chr9:100818187..100820098,2	MCF-7	breast:
4	chr9:100685001..100687073-chr9:100804782..100806329,2	K562	blood:

Variant related genes	Relation type
ENSG00000136932	Chromatin interaction
ENSG00000095380	Chromatin interaction

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10985065	0.83[CEU][hapmap]
rs12001675	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs12349452	0.83[YRI][hapmap]
rs12552242	0.82[CEU][hapmap]
rs12554172	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs3739672	0.89[CHB][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap]
rs4422880	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742711	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4743150	0.89[CHB][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap]
rs4743157	0.88[ASW][hapmap];0.88[YRI][hapmap]
rs55684882	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62575571	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6478539	0.88[ASW][hapmap];0.83[YRI][hapmap]
rs6478563	0.83[CEU][hapmap]
rs7022455	0.83[CEU][hapmap]
rs7028870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7029824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850685	0.89[CHB][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap]
rs7855432	0.89[CHB][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap]
rs7868838	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7869762	0.88[ASW][hapmap];0.83[YRI][hapmap]
rs874610	0.89[CHB][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv3493282	chr9:100784615-100805700	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3493283	chr9:100784615-100805700	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7852752	C9orf156	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100798000-100807000	Weak transcription	Spleen	Spleen
2	chr9:100798000-100807600	Weak transcription	HSMMtube	muscle
3	chr9:100798200-100807400	Weak transcription	Primary B cells from cord blood	blood
4	chr9:100800200-100807000	Weak transcription	K562	blood
5	chr9:100800400-100806200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr9:100800600-100805800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr9:100801600-100806000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr9:100801800-100807400	Weak transcription	HSMM	muscle
9	chr9:100802400-100809600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:100802800-100807600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr9:100803800-100805200	Weak transcription	GM12878-XiMat	blood
12	chr9:100804800-100807800	Enhancers	Primary B cells from peripheral blood	blood

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