Variant report

Variant	rs350204
Chromosome Location	chr16:12215470-12215471
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	chr16:12215027..12215616-chr8:139698499..139699323,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs168412	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1703485	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1703515	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1704107	1.00[ASN][1000 genomes]
rs1704117	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs181153	0.87[ASN][1000 genomes]
rs183009	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs350224	0.97[ASN][1000 genomes]
rs350229	1.00[CHB][hapmap]
rs350267	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs350273	1.00[ASN][1000 genomes]
rs350288	1.00[ASN][1000 genomes]
rs59875018	0.98[ASN][1000 genomes]
rs8060517	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv905347	chr16:12010444-12243329	Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	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
3	nsv1043959	chr16:12039346-12285269	Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv977111	chr16:12161129-12220593	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv571460	chr16:12181702-12238602	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1052973	chr16:12188092-12307880	ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1042146	chr16:12208242-12256699	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12184400-12231200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr16:12189800-12220400	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr16:12190000-12220200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr16:12190000-12220400	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr16:12191200-12223200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr16:12198200-12227800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr16:12200200-12220200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr16:12204800-12222000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr16:12207200-12218400	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr16:12208000-12221200	Weak transcription	Brain Substantia Nigra	brain
11	chr16:12208200-12228000	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr16:12208400-12218400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr16:12208400-12218800	Weak transcription	Brain Anterior Caudate	brain
14	chr16:12208600-12226800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr16:12211000-12218600	Weak transcription	Thymus	Thymus
16	chr16:12211000-12218600	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr16:12211000-12224400	Weak transcription	Duodenum Mucosa	Duodenum
18	chr16:12211000-12227800	Weak transcription	Fetal Intestine Small	intestine
19	chr16:12211200-12218400	Weak transcription	Primary hematopoietic stem cells	blood
20	chr16:12211200-12221400	Weak transcription	GM12878-XiMat	blood
21	chr16:12211200-12223200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr16:12211200-12223400	Weak transcription	Aorta	Aorta
23	chr16:12211200-12224400	Weak transcription	Pancreas	Pancrea
24	chr16:12211200-12226200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr16:12211600-12218400	Weak transcription	Primary B cells from cord blood	blood
26	chr16:12212600-12215600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr16:12213000-12215600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr16:12213000-12215600	Enhancers	Fetal Heart	heart
29	chr16:12213000-12215600	Enhancers	Fetal Muscle Leg	muscle
30	chr16:12213000-12215600	Enhancers	Placenta	Placenta
31	chr16:12213000-12215600	Enhancers	Right Ventricle	heart
32	chr16:12213000-12215600	Enhancers	NHLF	lung
33	chr16:12213000-12221400	Weak transcription	Primary T cells from cord blood	blood
34	chr16:12213200-12232600	Weak transcription	Colonic Mucosa	Colon
35	chr16:12213400-12215600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr16:12213600-12215600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr16:12213800-12226600	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr16:12213800-12228200	Weak transcription	Lung	lung
39	chr16:12213800-12228400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr16:12213800-12231400	Weak transcription	Small Intestine	intestine
41	chr16:12213800-12255400	Weak transcription	Gastric	stomach
42	chr16:12214000-12221600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr16:12214000-12221600	Weak transcription	Adipose Nuclei	Adipose
44	chr16:12214000-12226400	Weak transcription	HSMM	muscle
45	chr16:12214000-12228000	Weak transcription	Brain Cingulate Gyrus	brain
46	chr16:12214200-12215600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr16:12214200-12218400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr16:12214200-12221200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr16:12214400-12215800	Enhancers	Esophagus	oesophagus
50	chr16:12214400-12224600	Weak transcription	Skeletal Muscle Male	skeletal muscle

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