Variant report

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLAMF7-4	chr1:160722896-160724611	NONHSAT007075

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11582702	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11588524	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12068654	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12082740	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1328111	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17313034	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs17313062	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2176873	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2295616	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs35967351	0.86[EUR][1000 genomes]
rs3766370	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs3766373	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs3766374	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs489286	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs495706	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs518242	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs518721	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs564883	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs569932	0.83[EUR][1000 genomes]
rs579821	0.84[EUR][1000 genomes]

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	esv1822379	chr1:160545332-160831143	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv831714	chr1:160581168-160776809	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv428532	chr1:160671125-160767708	Flanking Active TSS Enhancers Genic enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11265473	SLAMF7	cis	multi-tissue	Pritchard

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160714400-160726800	Weak transcription	Primary B cells from peripheral blood	blood
2	chr1:160717000-160724400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr1:160718000-160723800	Genic enhancers	GM12878-XiMat	blood
4	chr1:160718400-160726000	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr1:160718400-160731000	Weak transcription	Esophagus	oesophagus
6	chr1:160719400-160731200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:160720800-160725800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr1:160720800-160731600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr1:160721000-160724600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr1:160721200-160725600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr1:160721400-160725400	Weak transcription	Spleen	Spleen
12	chr1:160722000-160736400	Weak transcription	Primary T cells from cord blood	blood
13	chr1:160723000-160723800	Enhancers	Ovary	ovary
14	chr1:160723000-160724200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr1:160723000-160725800	Weak transcription	Fetal Thymus	thymus
16	chr1:160723000-160730000	Enhancers	Primary T cells fromperipheralblood	blood
17	chr1:160723400-160725400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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