Variant report

Variant	rs55884522
Chromosome Location	chr19:36597022-36597023
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:36592203..36593879-chr19:36596112..36598331,2	K562	blood:
2	chr19:36596596..36601731-chr19:36602791..36606754,6	K562	blood:
3	chr19:36593550..36596505-chr19:36596648..36599628,2	MCF-7	breast:
4	chr19:36594737..36597838-chr19:36604030..36607473,3	K562	blood:
5	chr19:36543737..36545564-chr19:36596354..36598880,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105258	Chromatin interaction
ENSG00000161277	Chromatin interaction
ENSG00000105254	Chromatin interaction
ENSG00000105261	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs17639414	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17706584	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17851502	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs45567532	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4806263	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4806267	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4806274	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56185833	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57658467	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57893103	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58995551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59832408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60078822	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61494900	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61496921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62109714	0.82[EUR][1000 genomes]
rs62109742	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62109747	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62109749	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62109752	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62109756	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62109757	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62109758	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62111360	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62111361	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62111377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62111381	0.83[EUR][1000 genomes]
rs6510515	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8103791	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8113579	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][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	nsv833815	chr19:36519803-36624936	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55884522	WDR62	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36546600-36602200	Weak transcription	Colonic Mucosa	Colon
2	chr19:36546600-36604800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr19:36546800-36601400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr19:36556000-36601600	Weak transcription	Pancreas	Pancrea
5	chr19:36561200-36597600	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr19:36561200-36597600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
7	chr19:36561200-36597600	Strong transcription	Dnd41	blood
8	chr19:36561200-36598200	Strong transcription	HUES6 Cell Line	embryonic stem cell
9	chr19:36561200-36598400	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr19:36568600-36598000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr19:36568800-36601400	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr19:36570000-36598000	Strong transcription	Fetal Thymus	thymus
13	chr19:36571800-36598400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr19:36571800-36600000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr19:36571800-36600600	Strong transcription	Fetal Stomach	stomach
16	chr19:36572000-36598000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr19:36572400-36602400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr19:36573800-36602400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr19:36574200-36602000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr19:36574600-36604400	Weak transcription	NHDF-Ad	bronchial
21	chr19:36575400-36604200	Weak transcription	Primary B cells from cord blood	blood
22	chr19:36583400-36598000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr19:36585000-36598200	Strong transcription	Thymus	Thymus
24	chr19:36585000-36601600	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr19:36585000-36602400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr19:36585200-36604400	Weak transcription	Primary hematopoietic stem cells	blood
27	chr19:36587400-36598600	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr19:36587600-36598800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr19:36588200-36598600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr19:36588400-36598600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr19:36588400-36604800	Weak transcription	NH-A	brain
32	chr19:36589400-36597200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr19:36590200-36598200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr19:36590200-36600200	Strong transcription	Fetal Brain Female	brain
35	chr19:36590200-36604600	Strong transcription	Fetal Intestine Small	intestine
36	chr19:36590400-36605000	Weak transcription	Aorta	Aorta
37	chr19:36590600-36599400	Strong transcription	Brain Germinal Matrix	brain
38	chr19:36590600-36604800	Weak transcription	Psoas Muscle	Psoas
39	chr19:36591800-36597400	Weak transcription	Brain Anterior Caudate	brain
40	chr19:36591800-36598800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr19:36592200-36602400	Weak transcription	Brain Substantia Nigra	brain
42	chr19:36592400-36604800	Weak transcription	Right Atrium	heart
43	chr19:36593200-36602600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr19:36593400-36603400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr19:36593600-36597600	Strong transcription	Duodenum Mucosa	Duodenum
46	chr19:36594000-36602400	Weak transcription	Fetal Lung	lung
47	chr19:36594000-36603400	Weak transcription	Hela-S3	cervix
48	chr19:36594200-36602400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr19:36594400-36601400	Weak transcription	Liver	Liver
50	chr19:36594600-36599000	Weak transcription	Ovary	ovary

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