Variant report

Variant	rs827537
Chromosome Location	chr8:104322247-104322248
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:104309203..104312760-chr8:104317992..104322256,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164930	Chromatin interaction
ENSG00000247081	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10089343	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10090069	0.83[ASN][1000 genomes]
rs10094939	1.00[CHB][hapmap]
rs10096207	0.83[ASN][1000 genomes]
rs10097121	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs10101517	0.83[ASN][1000 genomes]
rs10102413	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10103739	0.83[ASN][1000 genomes]
rs10105195	0.83[ASN][1000 genomes]
rs10105450	0.83[ASN][1000 genomes]
rs10106795	1.00[ASN][1000 genomes]
rs10109642	0.83[ASN][1000 genomes]
rs10112450	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs10112941	0.83[ASN][1000 genomes]
rs10112952	0.83[ASN][1000 genomes]
rs10113160	0.83[ASN][1000 genomes]
rs10113367	0.83[ASN][1000 genomes]
rs1032471	1.00[CHB][hapmap]
rs1061196	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs1095715	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11779349	1.00[ASN][1000 genomes]
rs11781628	1.00[CHB][hapmap]
rs11785583	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11985002	0.83[ASN][1000 genomes]
rs12707777	1.00[ASN][1000 genomes]
rs13255562	0.83[ASN][1000 genomes]
rs13257958	0.83[ASN][1000 genomes]
rs13258345	1.00[ASN][1000 genomes]
rs13263611	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs13266347	0.83[ASN][1000 genomes]
rs13266642	0.83[ASN][1000 genomes]
rs13273192	1.00[ASN][1000 genomes]
rs13278335	0.83[ASN][1000 genomes]
rs13282967	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1370007	1.00[CHB][hapmap]
rs1403294	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs17205821	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17228538	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs17802416	1.00[CHB][hapmap]
rs17802518	0.83[ASN][1000 genomes]
rs17804088	1.00[CHB][hapmap]
rs17804149	1.00[CHB][hapmap]
rs2642365	0.85[EUR][1000 genomes]
rs2642369	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28437723	0.83[ASN][1000 genomes]
rs28811720	0.83[ASN][1000 genomes]
rs28862349	0.83[ASN][1000 genomes]
rs2948449	1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3104026	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs34208282	1.00[ASN][1000 genomes]
rs35225263	0.83[ASN][1000 genomes]
rs35392014	0.83[ASN][1000 genomes]
rs57237927	0.83[ASN][1000 genomes]
rs6468866	1.00[ASN][1000 genomes]
rs6985718	0.83[ASN][1000 genomes]
rs6989714	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs6990501	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs71520811	0.83[ASN][1000 genomes]
rs71520812	0.83[ASN][1000 genomes]
rs72675443	0.83[ASN][1000 genomes]
rs72675444	0.83[ASN][1000 genomes]
rs72675445	0.83[ASN][1000 genomes]
rs7464317	1.00[ASN][1000 genomes]
rs7820626	0.83[ASN][1000 genomes]
rs7839421	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs7845210	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs827526	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs827528	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs827538	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs827540	0.87[CEU][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs827546	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs827577	0.82[YRI][hapmap]
rs951826	1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs973242	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs981816	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv429931	chr8:104097396-104878014	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv1848810	chr8:104128496-104369288	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	esv1844303	chr8:104128696-104369090	Genic enhancers Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv1015965	chr8:104192086-104361108	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv1023181	chr8:104298542-104366365	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1020476	chr8:104312212-104924482	Genic enhancers Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv539704	chr8:104312212-104924482	Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
8	nsv527031	chr8:104320928-104333838	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs827537	FZD6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:104311600-104343600	Weak transcription	Spleen	Spleen
2	chr8:104311800-104327800	Weak transcription	Pancreas	Pancrea
3	chr8:104311800-104331200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr8:104311800-104331400	Weak transcription	Liver	Liver
5	chr8:104311800-104331400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr8:104311800-104343600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr8:104312000-104326600	Weak transcription	Gastric	stomach
8	chr8:104312000-104337200	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr8:104312000-104337200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr8:104312000-104343800	Weak transcription	Small Intestine	intestine
11	chr8:104312000-104348400	Weak transcription	Thymus	Thymus
12	chr8:104312000-104350200	Weak transcription	Esophagus	oesophagus
13	chr8:104312200-104337200	Weak transcription	Brain Anterior Caudate	brain
14	chr8:104312200-104337800	Weak transcription	Primary T cells from cord blood	blood
15	chr8:104312200-104339000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr8:104312400-104331400	Weak transcription	Fetal Stomach	stomach
17	chr8:104312400-104332600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr8:104312400-104345000	Weak transcription	Rectal Smooth Muscle	rectum
19	chr8:104312400-104345000	Weak transcription	Right Ventricle	heart
20	chr8:104312400-104350000	Weak transcription	Lung	lung
21	chr8:104312600-104327400	Weak transcription	A549	lung
22	chr8:104312600-104337200	Weak transcription	Brain Angular Gyrus	brain
23	chr8:104312600-104342400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr8:104312600-104344800	Weak transcription	Fetal Intestine Small	intestine
25	chr8:104312600-104350000	Weak transcription	Colon Smooth Muscle	Colon
26	chr8:104313200-104327600	Weak transcription	HepG2	liver
27	chr8:104313200-104336800	Weak transcription	Duodenum Mucosa	Duodenum
28	chr8:104317200-104328200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr8:104317400-104354000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr8:104317600-104345800	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr8:104317800-104323800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr8:104317800-104331200	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr8:104318000-104323400	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr8:104318000-104323600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr8:104318000-104333800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr8:104318000-104345200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr8:104318200-104323600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr8:104318200-104328000	Weak transcription	Fetal Heart	heart
39	chr8:104318200-104342600	Weak transcription	Brain Substantia Nigra	brain
40	chr8:104318600-104343400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr8:104319000-104322800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr8:104319200-104327200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr8:104319400-104334000	Weak transcription	Brain Hippocampus Middle	brain
44	chr8:104319400-104347200	Weak transcription	Hela-S3	cervix
45	chr8:104319600-104325000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr8:104320400-104322800	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr8:104320400-104323200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr8:104320400-104326600	Weak transcription	Left Ventricle	heart
49	chr8:104320400-104331000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr8:104320400-104343600	Weak transcription	Fetal Intestine Large	intestine

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