Variant report

Variant	rs16959100
Chromosome Location	chr16:12363105-12363106
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1032887	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10500378	0.86[ASN][1000 genomes]
rs10500380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12447994	0.86[ASN][1000 genomes]
rs13331380	0.87[ASN][1000 genomes]
rs13332083	0.87[ASN][1000 genomes]
rs13332306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs13380622	0.91[ASN][1000 genomes]
rs16959078	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs16959080	0.91[ASN][1000 genomes]
rs16959097	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16959126	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16959130	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16959197	0.87[ASN][1000 genomes]
rs16959253	0.87[ASN][1000 genomes]
rs16959350	1.00[CEU][hapmap]
rs2271269	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28372578	0.87[ASN][1000 genomes]
rs28408454	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28472378	0.87[ASN][1000 genomes]
rs28496413	0.87[ASN][1000 genomes]
rs41325045	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs56836971	0.87[ASN][1000 genomes]
rs57011047	0.87[ASN][1000 genomes]
rs60011426	0.87[ASN][1000 genomes]
rs60280624	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61159108	0.87[ASN][1000 genomes]
rs6498273	0.91[ASN][1000 genomes]
rs7187929	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7189091	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73506137	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73508005	0.87[ASN][1000 genomes]
rs746311	0.87[ASN][1000 genomes]
rs746312	0.87[ASN][1000 genomes]
rs8058627	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8062145	0.91[ASN][1000 genomes]
rs870641	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs905948	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9922894	0.87[ASN][1000 genomes]
rs9926796	1.00[CEU][hapmap]
rs9927344	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9929445	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9932158	1.00[CEU][hapmap]
rs9933058	0.87[ASN][1000 genomes]
rs9940308	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[ASN][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	nsv1043096	chr16:12013915-12840769	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv833141	chr16:12314613-12487992	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv516932	chr16:12363035-12363304	Weak transcription Strong transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12308000-12371400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr16:12309800-12371200	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr16:12323400-12394200	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr16:12323800-12373000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr16:12330800-12373000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr16:12334600-12371800	Weak transcription	Adipose Nuclei	Adipose
7	chr16:12338200-12396200	Weak transcription	Thymus	Thymus
8	chr16:12347800-12395200	Weak transcription	Right Ventricle	heart
9	chr16:12348200-12371400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr16:12350200-12371600	Weak transcription	GM12878-XiMat	blood
11	chr16:12351200-12373000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr16:12351200-12382800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr16:12354800-12382800	Weak transcription	Gastric	stomach
14	chr16:12355000-12366200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr16:12355200-12372000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr16:12356000-12390200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr16:12356400-12378000	Weak transcription	Spleen	Spleen
18	chr16:12356600-12371600	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr16:12356600-12372800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr16:12356800-12364800	Weak transcription	Psoas Muscle	Psoas
21	chr16:12356800-12371800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr16:12356800-12373000	Weak transcription	Fetal Intestine Small	intestine
23	chr16:12356800-12373000	Weak transcription	Fetal Stomach	stomach
24	chr16:12357000-12365000	Weak transcription	Pancreas	Pancrea
25	chr16:12357200-12383000	Weak transcription	Esophagus	oesophagus
26	chr16:12357400-12370400	Weak transcription	Aorta	Aorta
27	chr16:12357400-12373000	Weak transcription	Liver	Liver
28	chr16:12358200-12364600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr16:12358600-12373200	Weak transcription	Fetal Muscle Trunk	muscle
30	chr16:12359200-12377400	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr16:12359400-12380800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr16:12359800-12418000	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr16:12361200-12372600	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr16:12361800-12365000	Strong transcription	Primary B cells from cord blood	blood
35	chr16:12361800-12383000	Weak transcription	Fetal Muscle Leg	muscle
36	chr16:12362000-12368600	Weak transcription	HepG2	liver
37	chr16:12362000-12374600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr16:12362000-12382600	Weak transcription	Placenta	Placenta
39	chr16:12362600-12363600	Enhancers	Pancreatic Islets	Pancreatic Islet
40	chr16:12362800-12365400	Weak transcription	Primary B cells from peripheral blood	blood
41	chr16:12362800-12370400	Weak transcription	Primary T cells from cord blood	blood

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