Variant report

Variant	rs3750354
Chromosome Location	chr9:96415653-96415654
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96411800..96413942-chr9:96415397..96417041,2	K562	blood:
2	chr9:96397302..96399892-chr9:96415445..96418992,3	MCF-7	breast:
3	chr9:96391831..96394155-chr9:96413684..96415869,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10761245	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10761246	0.90[ASN][1000 genomes]
rs10761247	0.87[CHB][hapmap]
rs10761249	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10761250	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs10821184	0.89[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10821185	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs10821186	0.93[EUR][1000 genomes]
rs10821187	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821188	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821189	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821190	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821191	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821192	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs10821193	0.97[EUR][1000 genomes]
rs10821194	0.97[EUR][1000 genomes]
rs10821195	0.95[EUR][1000 genomes]
rs10821196	0.84[CHB][hapmap]
rs10821202	0.89[EUR][1000 genomes]
rs10821203	0.88[EUR][1000 genomes]
rs10992807	0.84[CHB][hapmap]
rs10992812	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs10992813	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs10992815	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs10992819	0.92[EUR][1000 genomes]
rs10992829	0.97[EUR][1000 genomes]
rs10992831	0.88[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs10992839	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs10992840	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs10992842	0.96[EUR][1000 genomes]
rs10992854	0.82[CHB][hapmap]
rs10992860	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs1132004	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1140722	0.91[EUR][1000 genomes]
rs11534279	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11793637	0.91[CHB][hapmap]
rs12002044	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12238738	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs1806458	0.83[CHB][hapmap]
rs1806524	0.93[CEU][hapmap]
rs2001315	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2001589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2001610	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs2398848	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs2398855	0.87[CHB][hapmap]
rs2398856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34031628	0.89[EUR][1000 genomes]
rs34103739	0.95[EUR][1000 genomes]
rs35171420	0.97[EUR][1000 genomes]
rs36013568	0.88[EUR][1000 genomes]
rs3750357	1.00[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs3750358	0.83[CHB][hapmap]
rs3750359	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs3750362	0.83[CHB][hapmap]
rs3829758	0.95[EUR][1000 genomes]
rs6479499	0.83[CHB][hapmap]
rs6479504	0.80[EUR][1000 genomes]
rs7024028	0.83[CHB][hapmap]
rs7036592	0.86[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs7040340	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7044244	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs7849752	0.95[CHB][hapmap]
rs7851178	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7851271	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7864397	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7868191	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893586	chr9:96363859-96493773	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv1036609	chr9:96375217-96477641	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv893587	chr9:96383605-96451784	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv972421	chr9:96413056-96428661	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96392200-96423600	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:96399000-96423400	Strong transcription	Fetal Intestine Large	intestine
3	chr9:96399400-96423600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr9:96400400-96430600	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr9:96401000-96430000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:96401000-96438600	Weak transcription	Psoas Muscle	Psoas
7	chr9:96401600-96423400	Strong transcription	Adipose Nuclei	Adipose
8	chr9:96401800-96423400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr9:96402600-96430200	Strong transcription	Cortex derived primary cultured neurospheres	brain
10	chr9:96402600-96433600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr9:96403200-96423000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr9:96403400-96430800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:96403400-96430800	Strong transcription	Liver	Liver
14	chr9:96404200-96422600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr9:96405000-96423400	Strong transcription	Fetal Thymus	thymus
16	chr9:96405000-96423800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr9:96405200-96423600	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr9:96405200-96429200	Strong transcription	Duodenum Mucosa	Duodenum
19	chr9:96405200-96431400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr9:96405400-96423000	Strong transcription	Fetal Stomach	stomach
21	chr9:96405400-96423200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr9:96405400-96423200	Strong transcription	Thymus	Thymus
23	chr9:96405400-96423400	Strong transcription	Brain Angular Gyrus	brain
24	chr9:96405400-96423400	Strong transcription	Dnd41	blood
25	chr9:96405400-96423600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr9:96405400-96423600	Strong transcription	Brain Inferior Temporal Lobe	brain
27	chr9:96405400-96430000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr9:96405400-96430600	Strong transcription	Primary T cells from cord blood	blood
29	chr9:96405400-96431400	Strong transcription	Fetal Brain Female	brain
30	chr9:96405400-96433200	Strong transcription	Fetal Intestine Small	intestine
31	chr9:96405600-96423200	Strong transcription	Sigmoid Colon	Sigmoid Colon
32	chr9:96405600-96423400	Strong transcription	Brain Cingulate Gyrus	brain
33	chr9:96405600-96423400	Strong transcription	Duodenum Smooth Muscle	Duodenum
34	chr9:96405600-96429800	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr9:96405600-96430000	Strong transcription	Brain Germinal Matrix	brain
36	chr9:96405600-96430400	Strong transcription	Stomach Smooth Muscle	stomach
37	chr9:96405800-96415800	Strong transcription	Left Ventricle	heart
38	chr9:96405800-96417400	Strong transcription	Brain Anterior Caudate	brain
39	chr9:96405800-96423200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr9:96405800-96423600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr9:96405800-96423800	Strong transcription	Ovary	ovary
42	chr9:96406000-96423200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr9:96406200-96438600	Weak transcription	Small Intestine	intestine
44	chr9:96406600-96423600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr9:96406800-96430600	Strong transcription	Brain Hippocampus Middle	brain
46	chr9:96407200-96423000	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr9:96407200-96423400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr9:96407200-96423400	Strong transcription	Brain Substantia Nigra	brain
49	chr9:96407200-96423400	Strong transcription	Skeletal Muscle Male	skeletal muscle
50	chr9:96407200-96430400	Strong transcription	Skeletal Muscle Female	skeletal muscle

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