Variant report

Variant	rs10738355
Chromosome Location	chr9:14197498-14197499
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10738356	0.92[EUR][1000 genomes]
rs10756532	0.82[CHB][hapmap]
rs10756535	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10756536	0.86[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs10810104	0.83[EUR][1000 genomes]
rs10810106	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10810110	0.83[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10810113	0.80[CHB][hapmap]
rs10810114	0.80[CHB][hapmap]
rs10961400	0.95[CHB][hapmap]
rs10961402	0.90[CHB][hapmap];0.85[AMR][1000 genomes]
rs10961413	1.00[CEU][hapmap];0.88[CHB][hapmap];0.93[JPT][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10961414	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs10961420	0.82[CHB][hapmap]
rs12235129	0.89[EUR][1000 genomes]
rs12376024	0.82[AMR][1000 genomes]
rs12377502	0.95[CHB][hapmap];0.82[CHD][hapmap];0.81[ASN][1000 genomes]
rs13287487	0.91[CEU][hapmap]
rs2382448	0.81[CEU][hapmap];0.80[CHB][hapmap]
rs2382450	1.00[CEU][hapmap];0.80[CHB][hapmap];0.82[EUR][1000 genomes]
rs2382451	0.91[CEU][hapmap]
rs2382454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2382456	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.85[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2382457	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.96[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2382458	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs2382459	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2890982	0.81[CEU][hapmap];0.80[CHB][hapmap]
rs2890984	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2890985	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs4532695	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4551459	0.91[CEU][hapmap];0.80[CHB][hapmap]
rs4628344	0.91[CEU][hapmap];0.90[EUR][1000 genomes]
rs6474822	0.86[CHB][hapmap]
rs6474823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6474824	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6474825	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7034162	0.91[CEU][hapmap];0.80[CHB][hapmap];0.87[EUR][1000 genomes]
rs7035474	0.86[CHB][hapmap];1.00[GIH][hapmap]
rs73413827	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9776572	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv892593	chr9:13948798-14233159	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv429998	chr9:14043516-14214688	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv892596	chr9:14145487-14208724	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv892597	chr9:14163383-14233159	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10738355	NFIB	cis	lymphoblastoid	seeQTL

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14123800-14198600	Weak transcription	Gastric	stomach
2	chr9:14177200-14203400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr9:14182000-14198600	Weak transcription	Ovary	ovary
4	chr9:14182800-14198200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:14183800-14198400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:14186000-14198600	Weak transcription	Lung	lung
7	chr9:14186800-14198600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr9:14187800-14198400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr9:14188200-14198600	Weak transcription	Fetal Stomach	stomach
10	chr9:14188200-14199000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr9:14189000-14198600	Weak transcription	Aorta	Aorta
12	chr9:14189800-14198600	Weak transcription	Small Intestine	intestine
13	chr9:14190400-14198000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr9:14190600-14198800	Weak transcription	A549	lung
15	chr9:14191000-14197600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr9:14191400-14197600	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr9:14191800-14202800	Enhancers	Fetal Heart	heart
18	chr9:14192800-14197600	Weak transcription	Fetal Muscle Leg	muscle
19	chr9:14192800-14198600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr9:14192800-14198600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr9:14192800-14198600	Weak transcription	Left Ventricle	heart
22	chr9:14192800-14198600	Weak transcription	Pancreas	Pancrea
23	chr9:14192800-14198800	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr9:14192800-14207400	Weak transcription	Spleen	Spleen
25	chr9:14192800-14213400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr9:14193800-14197800	Weak transcription	Osteobl	bone
27	chr9:14193800-14203000	Enhancers	Fetal Brain Female	brain
28	chr9:14194000-14198400	Weak transcription	Brain Hippocampus Middle	brain
29	chr9:14194400-14197800	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr9:14194400-14198200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr9:14194600-14199000	Enhancers	HUVEC	blood vessel
32	chr9:14194800-14198000	Weak transcription	Brain Germinal Matrix	brain
33	chr9:14195200-14198400	Weak transcription	Brain Substantia Nigra	brain
34	chr9:14195200-14198600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr9:14195200-14198600	Weak transcription	Psoas Muscle	Psoas
36	chr9:14195400-14197600	Weak transcription	Colon Smooth Muscle	Colon
37	chr9:14195800-14197600	Weak transcription	Right Atrium	heart
38	chr9:14195800-14197800	Weak transcription	Right Ventricle	heart
39	chr9:14195800-14198000	Weak transcription	Brain Anterior Caudate	brain
40	chr9:14196000-14198000	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr9:14196000-14199000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr9:14196000-14205400	Enhancers	Fetal Lung	lung
43	chr9:14196600-14198600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr9:14196600-14198800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:14197000-14198600	Enhancers	Stomach Smooth Muscle	stomach
46	chr9:14197000-14201400	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr9:14197000-14201400	Enhancers	HMEC	breast
48	chr9:14197200-14198000	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr9:14197200-14198000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr9:14197200-14198400	Weak transcription	Liver	Liver

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