Variant report

Variant	rs10981895
Chromosome Location	chr9:98519783-98519784
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1093398	1.00[CEU][hapmap];0.94[GIH][hapmap];0.88[TSI][hapmap]
rs10981787	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981907	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10981996	0.92[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10982065	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.92[MKK][hapmap];0.91[TSI][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28684994	0.95[EUR][1000 genomes]
rs467337	1.00[CEU][hapmap];0.97[GIH][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap]
rs60729070	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60945775	0.95[EUR][1000 genomes]
rs718340	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72756383	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7853659	0.93[EUR][1000 genomes]
rs7869096	0.92[AMR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10981895	FANCC	cis	parietal	SCAN
rs10981895	FBP1	cis	parietal	SCAN

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98514800-98527200	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:98515200-98520000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:98515200-98520400	Enhancers	Fetal Stomach	stomach
4	chr9:98516200-98520000	Enhancers	Fetal Lung	lung
5	chr9:98516400-98520200	Enhancers	Adipose Nuclei	Adipose
6	chr9:98516600-98527200	Weak transcription	Fetal Intestine Large	intestine
7	chr9:98517600-98522400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:98518200-98520000	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr9:98518200-98520000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr9:98518200-98522200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:98518200-98526200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr9:98518200-98528800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr9:98518600-98520000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr9:98518600-98520000	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr9:98518600-98520000	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr9:98518600-98520000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:98518600-98520200	Enhancers	H1 Cell Line	embryonic stem cell
18	chr9:98518600-98520400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:98518800-98520000	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr9:98519000-98519800	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr9:98519000-98519800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr9:98519000-98519800	Enhancers	HUVEC	blood vessel
23	chr9:98519000-98520000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:98519000-98520000	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr9:98519000-98520000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:98519000-98520200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:98519000-98520200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr9:98519000-98520400	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr9:98519200-98519800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr9:98519200-98519800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr9:98519200-98519800	Enhancers	NHDF-Ad	bronchial
32	chr9:98519200-98519800	Enhancers	NHEK	skin
33	chr9:98519200-98520200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr9:98519200-98520200	Enhancers	Fetal Kidney	kidney
35	chr9:98519200-98520200	Enhancers	Stomach Smooth Muscle	stomach
36	chr9:98519200-98520400	Enhancers	Fetal Muscle Leg	muscle
37	chr9:98519400-98519800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
38	chr9:98519400-98519800	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr9:98519400-98519800	Enhancers	Brain Cingulate Gyrus	brain
40	chr9:98519400-98519800	Active TSS	Fetal Brain Male	brain
41	chr9:98519400-98519800	Enhancers	Right Atrium	heart
42	chr9:98519400-98519800	Enhancers	HSMMtube	muscle
43	chr9:98519400-98520000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:98519400-98520000	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr9:98519400-98520000	Enhancers	Ovary	ovary
46	chr9:98519400-98520000	Enhancers	Hela-S3	cervix
47	chr9:98519400-98520000	Enhancers	HepG2	liver
48	chr9:98519400-98520200	Enhancers	Colon Smooth Muscle	Colon
49	chr9:98519400-98520200	Enhancers	NHLF	lung
50	chr9:98519400-98520800	Enhancers	GM12878-XiMat	blood

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