Variant report

Variant	rs10118491
Chromosome Location	chr9:85908222-85908223
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:46718060..46720676-chr9:85907908..85910586,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10117251	0.95[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10780587	0.84[CEU][hapmap];0.80[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10867975	0.83[ASN][1000 genomes]
rs10867976	0.84[ASN][1000 genomes]
rs10867977	0.84[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10867978	0.96[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10867980	0.88[CEU][hapmap];0.80[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10867981	0.88[CEU][hapmap];0.80[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10867982	0.88[CEU][hapmap];0.80[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10867983	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10867984	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11140007	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11140011	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11140013	0.85[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11140014	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11140015	0.88[CEU][hapmap];0.80[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1323775	0.96[CEU][hapmap];0.80[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1323776	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1359167	0.88[CEU][hapmap];0.80[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1359168	0.88[CEU][hapmap];0.80[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1535750	0.96[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1535752	0.81[AMR][1000 genomes]
rs1535753	0.81[MEX][hapmap];0.81[AMR][1000 genomes]
rs1886125	0.94[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1886126	0.96[CEU][hapmap];0.87[CHD][hapmap];0.83[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2209187	0.81[AMR][1000 genomes]
rs2209188	0.82[AMR][1000 genomes]
rs2378658	0.81[MEX][hapmap];0.81[AMR][1000 genomes]
rs2378659	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2889954	0.81[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3739658	0.81[AMR][1000 genomes]
rs4877251	0.88[CEU][hapmap];0.80[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4877751	0.80[CHB][hapmap];0.81[CHD][hapmap];0.81[MEX][hapmap]
rs4877752	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7039712	0.94[ASN][1000 genomes]
rs7039947	0.95[ASN][1000 genomes]
rs942278	0.81[MEX][hapmap]
rs942280	0.81[MEX][hapmap]
rs942282	0.81[AMR][1000 genomes]
rs942283	0.82[CHD][hapmap]

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	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv6586	chr9:85869828-85914812	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10118491	GOLM1	cis	parietal	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85856200-85910600	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr9:85866200-85913000	Weak transcription	Aorta	Aorta
3	chr9:85884200-85912400	Weak transcription	HepG2	liver
4	chr9:85895000-85912800	Weak transcription	Fetal Brain Female	brain
5	chr9:85896000-85913600	Weak transcription	Psoas Muscle	Psoas
6	chr9:85896000-85919800	Weak transcription	Lung	lung
7	chr9:85896400-85912600	Weak transcription	Gastric	stomach
8	chr9:85896400-85913400	Weak transcription	Brain Germinal Matrix	brain
9	chr9:85896600-85913000	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr9:85896800-85910800	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr9:85896800-85922800	Weak transcription	Spleen	Spleen
12	chr9:85897000-85912600	Weak transcription	Adipose Nuclei	Adipose
13	chr9:85897000-85912600	Weak transcription	Ovary	ovary
14	chr9:85897000-85912800	Weak transcription	Right Ventricle	heart
15	chr9:85897200-85912000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr9:85897200-85913000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr9:85897200-85919200	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr9:85897200-85922000	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr9:85897400-85914800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:85905800-85919000	Weak transcription	Fetal Stomach	stomach
21	chr9:85906000-85911600	Weak transcription	Left Ventricle	heart
22	chr9:85906400-85915000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr9:85906600-85919400	Weak transcription	Stomach Smooth Muscle	stomach
24	chr9:85906800-85919600	Weak transcription	Pancreas	Pancrea
25	chr9:85907800-85908600	Enhancers	Fetal Muscle Trunk	muscle
26	chr9:85907800-85908800	Enhancers	Fetal Muscle Leg	muscle
27	chr9:85908000-85908400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr9:85908200-85908400	Enhancers	Skeletal Muscle Male	skeletal muscle

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