Variant report

Variant	rs10405169
Chromosome Location	chr19:36663996-36663997
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10401633	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10402039	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10402069	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10402367	0.85[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10403200	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10409235	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10410837	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10420462	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10426507	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1476503	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1476504	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1559258	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1974843	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2112971	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4372806	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4630678	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4805162	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4806282	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6510526	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7249719	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7258520	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8103261	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3526489	chr19:36306483-36741945	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
2	esv3526490	chr19:36306483-36741945	Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
3	esv1831737	chr19:36324324-36690874	Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
4	esv2752541	chr19:36563057-36690874	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv579425	chr19:36643695-36685753	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr19:36642200-36673400	Weak transcription	Primary B cells from cord blood	blood
2	chr19:36643000-36673800	Weak transcription	NH-A	brain
3	chr19:36643800-36673200	Weak transcription	Brain Germinal Matrix	brain
4	chr19:36644400-36673000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr19:36644400-36673200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr19:36644400-36673400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr19:36644400-36673400	Weak transcription	Brain Angular Gyrus	brain
8	chr19:36652400-36673400	Weak transcription	Fetal Brain Female	brain
9	chr19:36653000-36673400	Weak transcription	Primary T cells from cord blood	blood
10	chr19:36653200-36673200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr19:36653200-36673200	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr19:36653200-36673400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr19:36653200-36673400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr19:36653200-36673400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr19:36653200-36673400	Weak transcription	HMEC	breast
16	chr19:36653200-36673600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr19:36653200-36681400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:36653200-36684600	Weak transcription	Aorta	Aorta
19	chr19:36655000-36673600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr19:36655800-36673400	Weak transcription	Fetal Brain Male	brain
21	chr19:36657800-36673400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr19:36658000-36673600	Weak transcription	Fetal Stomach	stomach
23	chr19:36660000-36673400	Weak transcription	Lung	lung
24	chr19:36660400-36673400	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr19:36660400-36673400	Weak transcription	HSMMtube	muscle
26	chr19:36660400-36673600	Weak transcription	Pancreas	Pancrea
27	chr19:36660600-36673400	Weak transcription	Thymus	Thymus
28	chr19:36660800-36673200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr19:36660800-36673200	Weak transcription	HSMM	muscle
30	chr19:36660800-36673400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr19:36660800-36673400	Weak transcription	Brain Substantia Nigra	brain
32	chr19:36660800-36673400	Weak transcription	Esophagus	oesophagus
33	chr19:36660800-36673600	Weak transcription	Right Ventricle	heart
34	chr19:36660800-36673600	Weak transcription	Spleen	Spleen
35	chr19:36661800-36664200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr19:36661800-36664400	Weak transcription	HepG2	liver
37	chr19:36661800-36668800	Weak transcription	Psoas Muscle	Psoas
38	chr19:36661800-36673000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr19:36661800-36673000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr19:36661800-36673000	Weak transcription	Fetal Intestine Small	intestine
41	chr19:36661800-36673200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr19:36661800-36673200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr19:36661800-36673200	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr19:36661800-36673200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr19:36661800-36673200	Weak transcription	Adipose Nuclei	Adipose
46	chr19:36661800-36673200	Weak transcription	Liver	Liver
47	chr19:36661800-36673200	Weak transcription	Brain Cingulate Gyrus	brain
48	chr19:36661800-36673200	Weak transcription	Brain Hippocampus Middle	brain
49	chr19:36661800-36673200	Weak transcription	Colon Smooth Muscle	Colon
50	chr19:36661800-36673200	Weak transcription	Duodenum Smooth Muscle	Duodenum

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