Variant report

Variant	rs1555456
Chromosome Location	chr9:117692884-117692885
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NRF1	chr9:117692823-117692961	GM12878	blood:	n/a	n/a
2	CREB1	chr9:117692710-117693052	GM12878	blood:	n/a	n/a
3	YY1	chr9:117692761-117693000	GM12892	blood:	n/a	n/a
4	RUNX3	chr9:117692749-117692967	GM12878	blood:	n/a	n/a
5	CTCF	chr9:117692820-117692934	Fibrobl	skin:	n/a	n/a
6	BHLHE40	chr9:117692356-117693006	GM12878	blood:	n/a	n/a
7	RUNX3	chr9:117692723-117693077	GM12878	blood:	n/a	n/a
8	EP300	chr9:117692846-117692949	GM12878	blood:	n/a	n/a
9	PAX5	chr9:117692809-117693032	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
TNFSF8	TF binding region

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1006025	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1006026	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1006027	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10081728	0.98[ASN][1000 genomes]
rs10817683	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817684	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817685	0.84[ASN][1000 genomes]
rs10982449	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10982450	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10982451	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10982453	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10982454	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10982455	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10982456	0.82[EUR][1000 genomes]
rs1322058	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1322059	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1322060	0.98[ASN][1000 genomes]
rs1555457	0.81[ASN][1000 genomes]
rs17292087	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2075534	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2181033	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2208640	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3181195	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181363	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181364	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181366	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181368	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181369	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181370	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3181371	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4979472	0.81[EUR][1000 genomes]
rs4979473	0.98[ASN][1000 genomes]
rs7028578	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7036962	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7037640	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs726656	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs726657	0.98[ASN][1000 genomes]
rs7872878	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs927373	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][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	nsv831695	chr9:117567626-117726247	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv6680	chr9:117690388-117699304	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117687800-117693400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:117688400-117693000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr9:117689000-117693400	Active TSS	Thymus	Thymus
4	chr9:117689400-117693600	Flanking Active TSS	Dnd41	blood
5	chr9:117689600-117693000	Active TSS	Rectal Mucosa Donor 29	rectum
6	chr9:117689600-117693600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr9:117689800-117693200	Active TSS	Adipose Nuclei	Adipose
8	chr9:117690200-117693000	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
9	chr9:117690600-117693000	Active TSS	Primary T helper naive cells from peripheral blood	blood
10	chr9:117690600-117693000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
11	chr9:117690600-117693000	Active TSS	Primary T killer memory cells from peripheral blood	blood
12	chr9:117690600-117693400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr9:117690800-117693000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
14	chr9:117691000-117693000	Flanking Active TSS	Primary B cells from peripheral blood	blood
15	chr9:117691000-117693000	Active TSS	Primary T regulatory cells fromperipheralblood	blood
16	chr9:117691200-117693400	Active TSS	Rectal Smooth Muscle	rectum
17	chr9:117691800-117693400	Active TSS	Brain Anterior Caudate	brain
18	chr9:117691800-117693800	Flanking Active TSS	Primary hematopoietic stem cells	blood
19	chr9:117692200-117693600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
20	chr9:117692400-117693000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
21	chr9:117692400-117693000	Active TSS	Skeletal Muscle Female	skeletal muscle
22	chr9:117692400-117693200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
23	chr9:117692400-117693200	Flanking Active TSS	Fetal Thymus	thymus
24	chr9:117692400-117693400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
25	chr9:117692400-117693400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
26	chr9:117692400-117693400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
27	chr9:117692400-117693600	Flanking Active TSS	Primary B cells from cord blood	blood
28	chr9:117692400-117693800	Enhancers	Spleen	Spleen
29	chr9:117692600-117693400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
30	chr9:117692600-117693600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
31	chr9:117692600-117693800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
32	chr9:117692800-117693000	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
33	chr9:117692800-117693000	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
34	chr9:117692800-117693200	Bivalent Enhancer	GM12878-XiMat	blood
35	chr9:117692800-117693400	Weak transcription	Esophagus	oesophagus
36	chr9:117692800-117693400	Weak transcription	Right Atrium	heart
37	chr9:117692800-117693600	Flanking Active TSS	Primary T cells from cord blood	blood
38	chr9:117692800-117695200	Enhancers	Fetal Lung	lung

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