Variant report

Variant	rs62534633
Chromosome Location	chr8:100896761-100896762
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:100884824..100892644-chr8:100893035..100898691,10	K562	blood:
2	chr8:100890039..100891811-chr8:100894568..100897400,2	K562	blood:
3	chr8:100894212..100902877-chr8:100903652..100908826,13	MCF-7	breast:
4	chr8:100894717..100897458-chr8:100897759..100900943,4	K562	blood:
5	chr8:100888112..100894632-chr8:100894660..100899830,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164919	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10955223	0.84[ASN][1000 genomes]
rs1130474	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1130569	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1135382	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12544943	0.82[ASN][1000 genomes]
rs12545930	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12546882	0.83[EUR][1000 genomes]
rs12547260	1.00[ASN][1000 genomes]
rs12548344	0.83[EUR][1000 genomes]
rs12548542	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12548840	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13252579	0.85[ASN][1000 genomes]
rs13253073	0.85[ASN][1000 genomes]
rs13259051	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13259066	0.82[ASN][1000 genomes]
rs13260744	0.80[EUR][1000 genomes]
rs13265660	0.80[EUR][1000 genomes]
rs13271488	0.80[EUR][1000 genomes]
rs13274441	0.82[EUR][1000 genomes]
rs13277184	1.00[ASN][1000 genomes]
rs13280341	0.85[ASN][1000 genomes]
rs34029308	0.84[ASN][1000 genomes]
rs34513504	0.82[EUR][1000 genomes]
rs34830464	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35031559	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35135010	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35935983	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4434590	0.87[EUR][1000 genomes]
rs4510829	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4626565	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62534626	0.83[EUR][1000 genomes]
rs6468695	0.83[EUR][1000 genomes]
rs6468696	0.83[EUR][1000 genomes]
rs7009713	0.83[EUR][1000 genomes]
rs7015733	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7157	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7812991	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7824037	0.80[EUR][1000 genomes]
rs7828241	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7831963	0.81[EUR][1000 genomes]
rs7832488	0.83[EUR][1000 genomes]
rs7840626	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7844439	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033944	chr8:100737321-100916345	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv1830910	chr8:100791156-101114794	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs62534633	VPS13B	Cis_1M	lymphoblastoid	RTeQTL
rs62534633	VPS13B	cis	Thyroid	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:100846400-100903800	Weak transcription	Stomach Mucosa	stomach
2	chr8:100868600-100898400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr8:100872000-100898200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr8:100872800-100903800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr8:100880400-100900000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr8:100883200-100901800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr8:100883600-100903200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr8:100883800-100901600	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr8:100883800-100903200	Strong transcription	Duodenum Mucosa	Duodenum
10	chr8:100884400-100898400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr8:100884400-100904800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr8:100885200-100903800	Weak transcription	Esophagus	oesophagus
13	chr8:100885600-100904800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr8:100886000-100899800	Strong transcription	Rectal Mucosa Donor 31	rectum
15	chr8:100886800-100898200	Weak transcription	Small Intestine	intestine
16	chr8:100886800-100904000	Weak transcription	Right Ventricle	heart
17	chr8:100886800-100904800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr8:100888200-100898400	Weak transcription	Lung	lung
19	chr8:100888200-100900800	Weak transcription	Pancreas	Pancrea
20	chr8:100888800-100897400	Weak transcription	HUVEC	blood vessel
21	chr8:100889000-100897600	Weak transcription	Hela-S3	cervix
22	chr8:100889200-100898200	Weak transcription	Brain Angular Gyrus	brain
23	chr8:100889200-100898600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr8:100889400-100898200	Weak transcription	Spleen	Spleen
25	chr8:100889400-100901000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr8:100889400-100904800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr8:100889600-100898200	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr8:100890800-100898400	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr8:100890800-100904000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr8:100891400-100904200	Weak transcription	Colonic Mucosa	Colon
31	chr8:100891600-100897600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr8:100892000-100896800	Weak transcription	NH-A	brain
33	chr8:100892400-100897600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr8:100892400-100897600	Weak transcription	Left Ventricle	heart
35	chr8:100892400-100898200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr8:100892400-100903400	Weak transcription	Gastric	stomach
37	chr8:100892800-100898800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr8:100893000-100899200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr8:100893200-100897800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr8:100893400-100897600	ZNF genes & repeats	Fetal Brain Female	brain
41	chr8:100893400-100899200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
42	chr8:100893600-100897600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr8:100893600-100898400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr8:100893600-100898600	ZNF genes & repeats	GM12878-XiMat	blood
45	chr8:100893600-100901400	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr8:100893800-100897000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr8:100893800-100897800	ZNF genes & repeats	Fetal Lung	lung
48	chr8:100893800-100899800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr8:100893800-100903200	Strong transcription	Liver	Liver
50	chr8:100894000-100903600	Strong transcription	Placenta	Placenta

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