Variant report

Variant	rs1657922
Chromosome Location	chr15:57178132-57178133
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:57176057..57187872-chr15:57206946..57217524,36	K562	blood:
2	chr15:57178056..57181492-chr15:57182204..57185235,4	MCF-7	breast:
3	chr15:57177826..57180634-chr15:57614648..57617463,2	K562	blood:
4	chr15:57178055..57182351-chr15:57208260..57213543,21	MCF-7	breast:
5	chr15:57178054..57181022-chr15:57209016..57212878,5	MCF-7	breast:
6	chr15:57169281..57172339-chr15:57176856..57178790,3	K562	blood:
7	chr15:56536601..56538445-chr15:57177718..57180315,2	K562	blood:
8	chr15:57173403..57176748-chr15:57177855..57180719,3	MCF-7	breast:
9	chr15:56773647..56776313-chr15:57177229..57179430,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction
ENSG00000140262	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10851612	0.91[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1115019	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1158246	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11856411	0.83[CHB][hapmap]
rs1430820	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs1430822	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs1441235	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1441236	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.83[ASN][1000 genomes]
rs1612205	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1629339	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1647378	0.82[AMR][1000 genomes]
rs1647385	0.91[AMR][1000 genomes]
rs1647392	0.94[CEU][hapmap]
rs1652744	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1652746	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1652747	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1652748	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1657927	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1657930	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1657934	1.00[CEU][hapmap];0.96[MEX][hapmap];0.90[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1657935	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1657936	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1657937	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1657938	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1657939	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1660948	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1660950	0.82[AMR][1000 genomes]
rs1660951	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1660958	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1660963	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1660964	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16977153	0.87[CHB][hapmap]
rs16977210	0.88[YRI][hapmap]
rs17415731	0.86[CHB][hapmap]
rs1820994	0.80[ASN][1000 genomes]
rs2278613	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28371400	0.95[ASN][1000 genomes]
rs28874022	0.83[ASN][1000 genomes]
rs4774245	0.87[CHB][hapmap]
rs4774893	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4774895	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6493893	0.94[CEU][hapmap];0.82[TSI][hapmap]
rs6493900	0.83[CHB][hapmap]
rs7162194	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7163267	0.83[CHB][hapmap]
rs7164655	0.83[CHB][hapmap]
rs7171073	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs7175191	0.91[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.92[ASN][1000 genomes]
rs7176873	0.82[JPT][hapmap]
rs7178833	0.83[CHB][hapmap]
rs7359253	1.00[CEU][hapmap];0.96[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8023343	0.85[CHB][hapmap];0.90[GIH][hapmap]
rs8031640	0.82[JPT][hapmap]
rs8032615	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs8034066	0.86[CHB][hapmap]
rs8035485	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs8039899	0.82[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1657922	TNFAIP8L3	cis	cerebellum	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57162200-57178400	Weak transcription	Thymus	Thymus
2	chr15:57164800-57178200	Weak transcription	Fetal Brain Male	brain
3	chr15:57164800-57178400	Weak transcription	Brain Anterior Caudate	brain
4	chr15:57164800-57178600	Weak transcription	Brain Hippocampus Middle	brain
5	chr15:57169200-57178600	Weak transcription	Fetal Lung	lung
6	chr15:57177000-57178800	Enhancers	Fetal Heart	heart
7	chr15:57177400-57179000	Enhancers	Fetal Thymus	thymus
8	chr15:57177600-57178600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:57177600-57178600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr15:57177600-57178600	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr15:57177800-57178600	Enhancers	Primary hematopoietic stem cells	blood
12	chr15:57177800-57178600	Enhancers	K562	blood
13	chr15:57177800-57178800	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr15:57177800-57178800	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr15:57177800-57178800	Enhancers	Primary B cells from cord blood	blood
16	chr15:57177800-57178800	Enhancers	Primary B cells from peripheral blood	blood
17	chr15:57177800-57178800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr15:57177800-57179000	Enhancers	Spleen	Spleen
19	chr15:57178000-57178200	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr15:57178000-57178200	Enhancers	Colon Smooth Muscle	Colon
21	chr15:57178000-57178400	Weak transcription	GM12878-XiMat	blood
22	chr15:57178000-57178600	Enhancers	Primary T helper naive cells from peripheral blood	blood
23	chr15:57178000-57178600	Enhancers	HepG2	liver
24	chr15:57178000-57178800	Enhancers	Primary T cells fromperipheralblood	blood
25	chr15:57178000-57178800	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr15:57178000-57178800	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr15:57178000-57178800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr15:57178000-57178800	Enhancers	Fetal Muscle Leg	muscle
29	chr15:57178000-57179000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr15:57178000-57179000	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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