Variant report

Variant	rs4146138
Chromosome Location	chr9:96355439-96355440
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96337228..96342243-chr9:96353878..96357514,8	K562	blood:
2	chr9:96350798..96352728-chr9:96354476..96356898,3	K562	blood:
3	chr9:96353562..96356481-chr9:96362305..96366209,4	MCF-7	breast:
4	chr9:96213315..96216205-chr9:96353785..96355750,2	MCF-7	breast:
5	chr9:96353399..96355498-chr9:96360574..96362233,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188938	Chromatin interaction
ENSG00000048828	Chromatin interaction
ENSG00000197724	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10046907	1.00[CHB][hapmap];0.82[JPT][hapmap];0.86[EUR][1000 genomes]
rs10119832	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10122014	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124517	0.82[EUR][1000 genomes]
rs10512224	0.82[JPT][hapmap]
rs10512226	0.82[CHB][hapmap];0.90[GIH][hapmap];0.82[JPT][hapmap]
rs10739952	1.00[ASN][1000 genomes]
rs1317260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13286188	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs1331588	0.82[CHB][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.83[TSI][hapmap]
rs16909211	1.00[CHB][hapmap]
rs1810886	0.81[ASN][1000 genomes]
rs2250236	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2254715	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2265573	0.92[ASN][1000 genomes]
rs2274851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2994366	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2994368	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3897285	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs55934002	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58782393	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62573992	0.81[ASN][1000 genomes]
rs7020195	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs7033849	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038564	1.00[CHB][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs7044283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651271	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7869286	0.94[ASN][1000 genomes]
rs7874126	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs914417	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9299409	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[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	nsv824984	chr9:96310933-96375022	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS 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 miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96341400-96356000	Weak transcription	Hela-S3	cervix
2	chr9:96341600-96359600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr9:96341800-96362200	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr9:96342200-96359600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr9:96342600-96357800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr9:96343400-96360600	Weak transcription	Dnd41	blood
7	chr9:96344800-96356400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr9:96345000-96356400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr9:96345000-96362600	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr9:96347400-96359000	Enhancers	Left Ventricle	heart
11	chr9:96347600-96355600	Enhancers	Right Ventricle	heart
12	chr9:96347600-96356200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:96347600-96360600	Weak transcription	Primary hematopoietic stem cells	blood
14	chr9:96348400-96356200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr9:96348400-96360200	Weak transcription	Primary B cells from cord blood	blood
16	chr9:96348400-96360200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:96349000-96365800	Weak transcription	Rectal Smooth Muscle	rectum
18	chr9:96349400-96356200	Weak transcription	A549	lung
19	chr9:96350800-96355600	Enhancers	HepG2	liver
20	chr9:96351400-96355600	Enhancers	Brain Cingulate Gyrus	brain
21	chr9:96351400-96357600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:96351400-96359600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr9:96352200-96355800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr9:96352400-96356000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr9:96352400-96356000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr9:96352400-96356400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr9:96352400-96357000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr9:96352400-96357000	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr9:96352400-96357200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr9:96352400-96358400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr9:96352400-96358600	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr9:96352400-96360200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr9:96352400-96361000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr9:96352400-96366000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr9:96352400-96369200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr9:96352400-96384600	Weak transcription	NHLF	lung
37	chr9:96352600-96355600	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr9:96352600-96356200	Weak transcription	HSMM	muscle
39	chr9:96352600-96356400	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr9:96352600-96358800	Weak transcription	Primary T cells from cord blood	blood
41	chr9:96352600-96362400	Weak transcription	Fetal Lung	lung
42	chr9:96352800-96356200	Weak transcription	HSMMtube	muscle
43	chr9:96352800-96358200	Weak transcription	Aorta	Aorta
44	chr9:96352800-96360600	Weak transcription	Thymus	Thymus
45	chr9:96352800-96360800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr9:96353000-96360000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr9:96353000-96360400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:96353200-96355600	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr9:96353400-96360000	Weak transcription	Brain Germinal Matrix	brain
50	chr9:96353800-96356000	Weak transcription	Fetal Heart	heart

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