Variant report

Variant	rs4533908
Chromosome Location	chr5:178156592-178156593
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:178154802..178159439-chr5:178284936..178288781,7	MCF-7	breast:
2	chr5:178052822..178055819-chr5:178156143..178158096,2	MCF-7	breast:
3	chr5:178156014..178158845-chr5:178285994..178289826,5	MCF-7	breast:
4	chr5:178056292..178058896-chr5:178156268..178158313,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178338	Chromatin interaction
ENSG00000113240	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10043035	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11747232	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11747390	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11750409	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11750784	0.83[EUR][1000 genomes]
rs13173130	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13186580	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34601045	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34645905	0.80[EUR][1000 genomes]
rs34651317	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34981407	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35007468	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35287913	0.83[AMR][1000 genomes]
rs35850587	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4612090	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55774261	0.81[AMR][1000 genomes]
rs55818572	0.82[ASN][1000 genomes]
rs56027952	0.82[ASN][1000 genomes]
rs56070635	0.82[ASN][1000 genomes]
rs56328282	0.86[AMR][1000 genomes]
rs62392842	0.82[ASN][1000 genomes]
rs62392851	0.80[AMR][1000 genomes]
rs62392852	0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs62392853	0.94[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs62392854	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66947564	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71611460	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[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	nsv948342	chr5:177384542-178168737	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	141 gene(s)	inside rSNPs	diseases
2	nsv1031666	chr5:177988601-178236068	Bivalent/Poised TSS Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv883217	chr5:178099758-178193081	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1031206	chr5:178149292-178283614	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537973	chr5:178149292-178283614	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4533908	ZNF354A	cis	Thyroid	GTEx

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178140600-178156600	Weak transcription	Hela-S3	cervix
2	chr5:178148400-178156600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr5:178149400-178156600	Weak transcription	Stomach Mucosa	stomach
4	chr5:178149400-178164400	Weak transcription	Fetal Heart	heart
5	chr5:178149800-178157000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr5:178150000-178156800	Weak transcription	HUVEC	blood vessel
7	chr5:178150400-178156600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr5:178150600-178156600	Weak transcription	NHLF	lung
9	chr5:178150800-178156800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr5:178152800-178157200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr5:178153800-178156600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr5:178153800-178156600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr5:178153800-178156600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr5:178153800-178156600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr5:178153800-178156600	Weak transcription	GM12878-XiMat	blood
16	chr5:178153800-178156600	Weak transcription	NHEK	skin
17	chr5:178154000-178156600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr5:178154000-178157200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr5:178154200-178156600	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr5:178154200-178156600	Weak transcription	Gastric	stomach
21	chr5:178154200-178156600	Weak transcription	Thymus	Thymus
22	chr5:178154200-178156600	Weak transcription	HSMMtube	muscle
23	chr5:178154200-178156800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr5:178154200-178156800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr5:178154200-178157000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr5:178154200-178157000	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr5:178154200-178157200	Weak transcription	Small Intestine	intestine
28	chr5:178154400-178156600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr5:178154400-178156600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr5:178154600-178156600	Weak transcription	Primary B cells from peripheral blood	blood
31	chr5:178154800-178156600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr5:178154800-178156600	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr5:178154800-178156600	Weak transcription	Duodenum Mucosa	Duodenum
34	chr5:178154800-178156600	Weak transcription	Fetal Kidney	kidney
35	chr5:178154800-178156800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr5:178154800-178156800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr5:178155000-178156600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr5:178155000-178156600	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr5:178155000-178156600	Weak transcription	Brain Angular Gyrus	brain
40	chr5:178155000-178156600	Weak transcription	Colon Smooth Muscle	Colon
41	chr5:178155000-178156800	Weak transcription	Fetal Lung	lung
42	chr5:178155000-178157000	Weak transcription	Ovary	ovary
43	chr5:178155200-178156600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr5:178155200-178156600	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr5:178155200-178156600	Weak transcription	Primary T cells from cord blood	blood
46	chr5:178155200-178156600	Weak transcription	Brain Cingulate Gyrus	brain
47	chr5:178155200-178157000	Weak transcription	Aorta	Aorta
48	chr5:178155400-178156600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr5:178155400-178156600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr5:178155400-178156600	Weak transcription	Primary T helper cells fromperipheralblood	blood

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