Variant report

Variant	rs16860759
Chromosome Location	chr1:168489596-168489597
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:168488187..168491038-chr1:168501601..168503776,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10918889	1.00[EUR][1000 genomes]
rs10918890	1.00[EUR][1000 genomes]
rs10918891	1.00[EUR][1000 genomes]
rs10918892	1.00[EUR][1000 genomes]
rs10918893	1.00[EUR][1000 genomes]
rs10918895	1.00[EUR][1000 genomes]
rs10918896	1.00[EUR][1000 genomes]
rs10918913	1.00[EUR][1000 genomes]
rs10918914	1.00[EUR][1000 genomes]
rs10918915	1.00[EUR][1000 genomes]
rs10918916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10918918	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10918929	1.00[EUR][1000 genomes]
rs12058640	1.00[EUR][1000 genomes]
rs12059095	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059526	1.00[EUR][1000 genomes]
rs12059722	1.00[EUR][1000 genomes]
rs12060094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12060180	1.00[EUR][1000 genomes]
rs12061311	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12061688	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12062599	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12064517	1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12064716	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12065600	1.00[EUR][1000 genomes]
rs12069600	1.00[EUR][1000 genomes]
rs12071398	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12071533	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12071580	1.00[EUR][1000 genomes]
rs12071946	1.00[EUR][1000 genomes]
rs12072708	1.00[EUR][1000 genomes]
rs12072756	1.00[EUR][1000 genomes]
rs12073928	1.00[EUR][1000 genomes]
rs12075383	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12076618	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12078253	1.00[AMR][1000 genomes]
rs12080560	1.00[EUR][1000 genomes]
rs12086182	1.00[EUR][1000 genomes]
rs12087491	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12088031	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12088109	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12093369	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12093899	1.00[EUR][1000 genomes]
rs12095242	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12095394	1.00[EUR][1000 genomes]
rs12096533	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12096552	1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12563551	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1323524	1.00[EUR][1000 genomes]
rs16860744	1.00[EUR][1000 genomes]
rs16860745	1.00[EUR][1000 genomes]
rs16860750	1.00[EUR][1000 genomes]
rs2092400	1.00[EUR][1000 genomes]
rs28537856	1.00[AMR][1000 genomes]
rs58887669	1.00[EUR][1000 genomes]
rs60094342	1.00[EUR][1000 genomes]
rs6674956	1.00[EUR][1000 genomes]
rs73027529	1.00[EUR][1000 genomes]
rs73031504	1.00[EUR][1000 genomes]
rs73031508	1.00[EUR][1000 genomes]
rs74120912	1.00[EUR][1000 genomes]
rs74120961	1.00[EUR][1000 genomes]
rs74120963	1.00[EUR][1000 genomes]
rs74120965	1.00[EUR][1000 genomes]
rs74123943	1.00[EUR][1000 genomes]
rs74123944	1.00[EUR][1000 genomes]
rs7526174	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014626	chr1:168441288-168642731	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv535196	chr1:168441288-168642731	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011821	chr1:168441488-168642592	Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv535197	chr1:168441488-168642592	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1008852	chr1:168449940-168643905	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv535198	chr1:168449940-168643905	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv1007846	chr1:168449940-168687265	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168484400-168490400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr1:168484600-168489600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:168484600-168489600	Weak transcription	Thymus	Thymus
4	chr1:168485600-168490000	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr1:168487000-168493000	Enhancers	Primary T cells fromperipheralblood	blood
6	chr1:168487200-168489600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr1:168487200-168489600	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr1:168487200-168492600	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr1:168487200-168492800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr1:168487200-168492800	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr1:168487200-168492800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr1:168487400-168489600	Enhancers	Primary T cells from cord blood	blood
13	chr1:168487400-168490200	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr1:168487400-168492200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr1:168487400-168493200	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr1:168488000-168489600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr1:168488800-168490400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr1:168488800-168490400	Flanking Active TSS	Dnd41	blood
19	chr1:168488800-168492200	Enhancers	Fetal Thymus	thymus
20	chr1:168489000-168489600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr1:168489000-168489600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr1:168489000-168489600	Weak transcription	Spleen	Spleen
23	chr1:168489000-168491400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr1:168489000-168492000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
25	chr1:168489000-168492400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr1:168489200-168490200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
27	chr1:168489200-168491400	Enhancers	Primary hematopoietic stem cells	blood
28	chr1:168489400-168490000	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr1:168489400-168490200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr1:168489400-168490400	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr1:168489400-168490400	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr1:168489400-168490400	Enhancers	GM12878-XiMat	blood
33	chr1:168489400-168491200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr1:168489400-168491400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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