Variant report

Variant	rs1784476
Chromosome Location	chr8:107771680-107771681
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:107770129..107772071-chr8:107772646..107775395,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1080965	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1552302	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1580428	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1580429	0.87[CEU][hapmap];0.81[GIH][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes]
rs1676418	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1676419	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1681881	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1681887	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16875004	1.00[YRI][hapmap]
rs1784468	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1784470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1784478	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1784484	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1784485	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1784489	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1784493	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2035516	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs702777	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72682834	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs763904	0.81[AMR][1000 genomes]
rs776935	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776937	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776942	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs776943	0.87[CEU][hapmap]
rs776952	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776953	0.81[AMR][1000 genomes]
rs776956	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776957	0.81[AMR][1000 genomes]
rs776958	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776964	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776966	0.87[CEU][hapmap];0.81[GIH][hapmap];0.90[TSI][hapmap]
rs776967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs776968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs812907	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs936737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959301	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[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	nsv831419	chr8:107624709-107827801	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1032991	chr8:107756661-107819035	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1784476	TMEM74	cis	parietal	SCAN

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107719600-107775200	Weak transcription	Gastric	stomach
2	chr8:107719600-107777800	Weak transcription	Esophagus	oesophagus
3	chr8:107739000-107775200	Weak transcription	A549	lung
4	chr8:107740000-107775200	Weak transcription	Ovary	ovary
5	chr8:107740200-107783800	Weak transcription	Fetal Brain Male	brain
6	chr8:107740800-107775200	Weak transcription	Brain Substantia Nigra	brain
7	chr8:107749400-107775200	Weak transcription	HMEC	breast
8	chr8:107753600-107777400	Weak transcription	HUVEC	blood vessel
9	chr8:107753800-107775200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr8:107754200-107775200	Weak transcription	Pancreas	Pancrea
11	chr8:107754800-107775200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr8:107755200-107772000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr8:107755800-107777800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr8:107756000-107775000	Weak transcription	Fetal Heart	heart
15	chr8:107756400-107772400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr8:107756400-107775000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr8:107756400-107777800	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr8:107756600-107772000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr8:107756600-107772200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr8:107756600-107772400	Weak transcription	Left Ventricle	heart
21	chr8:107756600-107772800	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr8:107756600-107775200	Weak transcription	Brain Angular Gyrus	brain
23	chr8:107756600-107775200	Weak transcription	Brain Anterior Caudate	brain
24	chr8:107756600-107775200	Weak transcription	Fetal Intestine Large	intestine
25	chr8:107756600-107775200	Weak transcription	Fetal Kidney	kidney
26	chr8:107756600-107775200	Weak transcription	Fetal Muscle Leg	muscle
27	chr8:107756600-107775200	Weak transcription	Stomach Smooth Muscle	stomach
28	chr8:107756600-107777400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr8:107756600-107777400	Weak transcription	Psoas Muscle	Psoas
30	chr8:107756600-107777600	Weak transcription	Fetal Brain Female	brain
31	chr8:107756800-107775200	Weak transcription	Brain Cingulate Gyrus	brain
32	chr8:107756800-107775200	Weak transcription	Osteobl	bone
33	chr8:107757200-107775200	Weak transcription	NHDF-Ad	bronchial
34	chr8:107758000-107771800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr8:107759800-107775200	Weak transcription	Fetal Thymus	thymus
36	chr8:107760200-107773800	Weak transcription	GM12878-XiMat	blood
37	chr8:107760200-107775800	Weak transcription	Right Ventricle	heart
38	chr8:107761400-107777600	Weak transcription	Fetal Stomach	stomach
39	chr8:107761600-107775200	Weak transcription	Fetal Intestine Small	intestine
40	chr8:107761600-107775600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr8:107764400-107772400	Weak transcription	Primary B cells from peripheral blood	blood
42	chr8:107764400-107773600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr8:107764400-107775200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr8:107764400-107775200	Weak transcription	Liver	Liver
45	chr8:107764400-107775200	Weak transcription	Colon Smooth Muscle	Colon
46	chr8:107764400-107775200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr8:107764600-107772000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr8:107764600-107775200	Weak transcription	Fetal Lung	lung
49	chr8:107765400-107777200	Weak transcription	HSMM	muscle
50	chr8:107765600-107775200	Weak transcription	Duodenum Smooth Muscle	Duodenum

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