Variant report

Variant	rs12555100
Chromosome Location	chr9:72196689-72196690
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:150207954..150208537-chr9:72196079..72196874,2	MCF-7	breast:
2	chr9:72195299..72197073-chr9:72236850..72239797,2	MCF-7	breast:
3	chr9:72192844..72194505-chr9:72195601..72198020,2	K562	blood:

Variant related genes	Relation type
ENSG00000143401	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11139414	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11999656	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12000827	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12000908	1.00[CEU][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12006272	0.85[EUR][1000 genomes]
rs12552474	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12553894	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12553941	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12554978	1.00[EUR][1000 genomes]
rs1411439	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1411441	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1411442	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3927537	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4636268	0.85[EUR][1000 genomes]
rs56654380	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57512468	1.00[EUR][1000 genomes]
rs58638129	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58667541	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58898534	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59791186	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60759202	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7036538	0.85[EUR][1000 genomes]
rs72717199	0.85[EUR][1000 genomes]
rs72719005	0.85[EUR][1000 genomes]
rs72719017	0.85[EUR][1000 genomes]
rs72719024	0.97[EUR][1000 genomes]
rs73647250	0.85[EUR][1000 genomes]
rs73647252	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73647254	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73647255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73647256	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73647257	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73647259	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73647260	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73647261	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73647262	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73647263	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73647264	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73647265	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73647266	0.80[EUR][1000 genomes]
rs7849601	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7861451	0.85[EUR][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	nsv893437	chr9:72118962-72223176	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72180400-72208400	Weak transcription	Gastric	stomach
2	chr9:72186200-72200800	Weak transcription	HSMMtube	muscle
3	chr9:72187400-72204800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:72187800-72198600	Weak transcription	NHDF-Ad	bronchial
5	chr9:72188800-72198800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr9:72189400-72197400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr9:72189400-72199200	Weak transcription	NH-A	brain
8	chr9:72192800-72197200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr9:72193200-72204400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr9:72193400-72200200	Weak transcription	Right Ventricle	heart
11	chr9:72193800-72197200	Weak transcription	Brain Angular Gyrus	brain
12	chr9:72194000-72197200	Enhancers	HepG2	liver
13	chr9:72195000-72197000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr9:72195000-72198800	Enhancers	Left Ventricle	heart
15	chr9:72195200-72197600	Weak transcription	Small Intestine	intestine
16	chr9:72195200-72198000	Weak transcription	Stomach Mucosa	stomach
17	chr9:72195400-72198400	Enhancers	Liver	Liver
18	chr9:72195400-72200400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:72195400-72200600	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr9:72195800-72208200	Weak transcription	Fetal Lung	lung
21	chr9:72196000-72197200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr9:72196000-72197200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr9:72196000-72197200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr9:72196000-72197400	Weak transcription	Right Atrium	heart
25	chr9:72196000-72198000	Weak transcription	Brain Germinal Matrix	brain
26	chr9:72196000-72204800	Weak transcription	Fetal Brain Male	brain
27	chr9:72196200-72204800	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr9:72196400-72197000	Enhancers	Fetal Muscle Leg	muscle
29	chr9:72196400-72199400	Enhancers	Fetal Heart	heart
30	chr9:72196400-72201000	Enhancers	HUVEC	blood vessel
31	chr9:72196600-72196800	Enhancers	Adipose Nuclei	Adipose
32	chr9:72196600-72197400	Enhancers	Primary hematopoietic stem cells short term culture	blood

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