Variant report

Variant	rs11640354
Chromosome Location	chr16:12456922-12456923
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12103349	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1566974	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2278057	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs289670	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4780424	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4781213	0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4781215	0.83[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6498283	1.00[AFR][1000 genomes]
rs7187494	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8044541	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8061414	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[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	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	nsv457411	chr16:12363304-12520199	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv571462	chr16:12363304-12520199	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv571463	chr16:12367791-12783535	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv1045385	chr16:12376389-12517006	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv542748	chr16:12376389-12517006	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12410200-12464800	Weak transcription	Gastric	stomach
2	chr16:12428400-12461200	Weak transcription	Thymus	Thymus
3	chr16:12434600-12460200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr16:12435800-12484000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr16:12443200-12457000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr16:12443600-12470800	Weak transcription	HepG2	liver
7	chr16:12444800-12491400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr16:12447600-12470000	Weak transcription	Esophagus	oesophagus
9	chr16:12448600-12460400	Weak transcription	Fetal Stomach	stomach
10	chr16:12448600-12471200	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr16:12449000-12457400	Weak transcription	Colon Smooth Muscle	Colon
12	chr16:12449800-12463000	Strong transcription	Primary B cells from peripheral blood	blood
13	chr16:12450800-12470000	Weak transcription	Fetal Thymus	thymus
14	chr16:12452800-12464200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr16:12453000-12461000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr16:12453000-12470600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr16:12453200-12479000	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr16:12453400-12467400	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr16:12453400-12469400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr16:12454400-12460000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr16:12454400-12469200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr16:12454600-12460800	Weak transcription	GM12878-XiMat	blood
23	chr16:12454600-12470800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr16:12454800-12458000	Weak transcription	Primary T cells from cord blood	blood
25	chr16:12454800-12458800	Strong transcription	Primary B cells from cord blood	blood
26	chr16:12455000-12458600	Weak transcription	Pancreas	Pancrea
27	chr16:12455600-12479400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr16:12455800-12457400	Enhancers	Brain Cingulate Gyrus	brain
29	chr16:12455800-12457400	Enhancers	Brain Substantia Nigra	brain
30	chr16:12456000-12457200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr16:12456000-12457400	Enhancers	Brain Anterior Caudate	brain
32	chr16:12456000-12457400	Enhancers	Fetal Heart	heart
33	chr16:12456000-12457600	Enhancers	Brain Hippocampus Middle	brain
34	chr16:12456000-12457600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr16:12456200-12457000	Enhancers	Lung	lung
36	chr16:12456200-12457200	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr16:12456200-12457400	Enhancers	Left Ventricle	heart
38	chr16:12456200-12457600	Enhancers	Adipose Nuclei	Adipose
39	chr16:12456200-12457600	Enhancers	Right Atrium	heart
40	chr16:12456200-12470600	Weak transcription	NHEK	skin
41	chr16:12456400-12457200	Enhancers	Fetal Muscle Trunk	muscle
42	chr16:12456400-12457400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr16:12456400-12457400	Enhancers	Right Ventricle	heart
44	chr16:12456400-12457600	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr16:12456400-12457600	Enhancers	NHDF-Ad	bronchial
46	chr16:12456600-12457000	Enhancers	Rectal Smooth Muscle	rectum
47	chr16:12456600-12457200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr16:12456600-12457200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr16:12456600-12457200	Enhancers	Cortex derived primary cultured neurospheres	brain
50	chr16:12456600-12457200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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