Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89994341..89996792-chr10:90014241..90017227,2	MCF-7	breast:

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10509540	0.93[ASN][1000 genomes]
rs12415812	0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs12416116	0.80[ASN][1000 genomes]
rs166976	0.94[ASN][1000 genomes]
rs17110523	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs286487	0.86[ASN][1000 genomes]
rs3781196	0.94[CEU][hapmap];0.86[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3781197	0.86[ASW][hapmap];0.88[CEU][hapmap];0.80[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.88[JPT][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs45585838	0.87[ASN][1000 genomes]
rs558443	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs7068821	0.81[CHD][hapmap];0.88[JPT][hapmap]
rs7094781	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7922058	0.86[ASW][hapmap];0.94[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];0.83[MEX][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9665166	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs999951	0.94[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]

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	nsv467414	chr10:90006507-90042154	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs737391	LIPJ	cis	cerebellum	SCAN
rs737391	PCGF5	cis	cerebellum	SCAN
rs737391	CH25H	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90005800-90017200	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr10:90014200-90018400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr10:90014200-90028400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr10:90014400-90017400	Weak transcription	HUVEC	blood vessel
5	chr10:90014400-90019800	Weak transcription	GM12878-XiMat	blood
6	chr10:90014600-90019800	Weak transcription	Dnd41	blood
7	chr10:90014600-90025600	Weak transcription	Osteobl	bone
8	chr10:90015000-90020200	Weak transcription	HMEC	breast
9	chr10:90015200-90020200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:90015600-90017200	Weak transcription	Fetal Intestine Large	intestine
11	chr10:90015800-90017000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:90015800-90018600	Weak transcription	Pancreas	Pancrea
13	chr10:90016600-90016800	Enhancers	Adipose Nuclei	Adipose
14	chr10:90016600-90017000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr10:90016600-90017200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr10:90016600-90017200	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr10:90016600-90017600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr10:90016600-90017600	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr10:90016600-90017600	Enhancers	NHDF-Ad	bronchial
20	chr10:90016600-90017600	Enhancers	NHLF	lung

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