Variant report

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr8:39891378..39892077-chr8:40058978..40059905,2	MCF-7	breast:
2	chr8:39847218..39847745-chr8:39891157..39891672,2	MCF-7	breast:
3	chr8:39891220..39891770-chr8:40058999..40059906,2	K562	blood:
4	chr8:39891284..39892174-chr8:40056706..40057412,3	K562	blood:
5	chr8:39890971..39892314-chr8:40056814..40057856,5	MCF-7	breast:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IDO2-1	chr8:39891376-39891497	XLOC_006779
2	lnc-IDO2-1	chr8:39891060-39891498	FPKM1_group_31215_transcript_1
3	lnc-IDO2-1	chr8:39891060-39891498	NONHSAT126190

No data

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1986745	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2955863	0.84[AMR][1000 genomes]
rs2955869	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2955870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2955873	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2955903	0.96[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2981152	0.86[EUR][1000 genomes]
rs2981153	0.80[ASN][1000 genomes]
rs35844645	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62513286	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1033371	chr8:39749437-39899540	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3517399	chr8:39884495-39891993	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv534582	chr8:39884590-40653224	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv3517401	chr8:39884970-39891943	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2981182	STAR	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39891200-39891600	Flanking Active TSS	A549	lung
2	chr8:39891200-39892000	Enhancers	Brain Anterior Caudate	brain
3	chr8:39891200-39893600	Enhancers	Liver	Liver
4	chr8:39891200-39894200	Enhancers	Colon Smooth Muscle	Colon
5	chr8:39891200-39894400	Enhancers	Hela-S3	cervix
6	chr8:39891400-39891600	Flanking Active TSS	HepG2	liver
7	chr8:39891400-39891800	Enhancers	Duodenum Smooth Muscle	Duodenum
8	chr8:39891400-39892000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr8:39891400-39895400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr8:39891400-39896800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr8:39891400-39898400	Weak transcription	Pancreas	Pancrea

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