Variant report

Variant	rs9409478
Chromosome Location	chr9:96379505-96379506
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96337969..96340007-chr9:96379464..96381194,2	MCF-7	breast:
2	chr9:96379107..96381453-chr9:96385591..96387233,2	MCF-7	breast:
3	chr9:96375382..96377064-chr9:96378905..96380672,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197724	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10821156	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs10821161	1.00[MEX][hapmap]
rs10821183	0.88[AMR][1000 genomes]
rs2001368	0.82[AMR][1000 genomes]
rs28835702	0.81[AMR][1000 genomes]
rs4330749	0.81[AMR][1000 genomes]
rs4744244	1.00[MEX][hapmap];0.80[AMR][1000 genomes]
rs4744256	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[GIH][hapmap];1.00[LWK][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479489	1.00[MEX][hapmap];0.80[AMR][1000 genomes]
rs6479490	1.00[MEX][hapmap]
rs6479491	1.00[MEX][hapmap]
rs928367	1.00[MEX][hapmap];0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040891	chr9:96361529-96397338	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv1044461	chr9:96362048-96397338	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv893585	chr9:96363859-96403367	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	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
5	nsv1055035	chr9:96372269-96402747	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3408240	chr9:96375131-96379629	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	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
8	esv3356539	chr9:96378631-96382829	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96352400-96384600	Weak transcription	NHLF	lung
2	chr9:96361400-96380400	Weak transcription	Fetal Brain Male	brain
3	chr9:96363200-96392000	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr9:96363600-96383600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr9:96364200-96380600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr9:96366600-96386600	Weak transcription	Fetal Heart	heart
7	chr9:96372800-96392000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr9:96373400-96386200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr9:96373400-96387000	Weak transcription	Fetal Brain Female	brain
10	chr9:96373400-96390000	Weak transcription	Primary B cells from cord blood	blood
11	chr9:96374600-96399800	Weak transcription	K562	blood
12	chr9:96374800-96385400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr9:96375000-96381600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr9:96375000-96382400	Weak transcription	Liver	Liver
15	chr9:96375000-96382600	Weak transcription	Hela-S3	cervix
16	chr9:96375200-96379600	Weak transcription	Thymus	Thymus
17	chr9:96375200-96383200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr9:96375200-96383200	Weak transcription	Stomach Mucosa	stomach
19	chr9:96375200-96383800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr9:96375200-96391800	Weak transcription	Colonic Mucosa	Colon
21	chr9:96375400-96380400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr9:96375400-96385800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr9:96375600-96382800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr9:96375600-96383000	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr9:96375600-96383200	Weak transcription	Brain Angular Gyrus	brain
26	chr9:96375600-96383600	Weak transcription	Duodenum Mucosa	Duodenum
27	chr9:96375600-96383800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr9:96375600-96390000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr9:96375800-96383400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr9:96375800-96386200	Weak transcription	Dnd41	blood
31	chr9:96375800-96390000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr9:96376000-96380400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr9:96376000-96381000	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr9:96376200-96393000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:96376400-96390000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr9:96376600-96381400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr9:96376600-96390000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr9:96376800-96382000	Weak transcription	Stomach Smooth Muscle	stomach
39	chr9:96376800-96383400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr9:96377000-96382200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr9:96377000-96382400	Weak transcription	Brain Cingulate Gyrus	brain
42	chr9:96377200-96380000	Weak transcription	Primary T cells from cord blood	blood
43	chr9:96377200-96382200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr9:96377200-96389200	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr9:96377600-96379600	Weak transcription	Lung	lung
46	chr9:96377800-96380600	Enhancers	Pancreas	Pancrea
47	chr9:96377800-96386600	Weak transcription	Fetal Kidney	kidney
48	chr9:96378000-96380200	Weak transcription	Spleen	Spleen
49	chr9:96378000-96381400	Weak transcription	Esophagus	oesophagus
50	chr9:96378200-96380400	Weak transcription	Right Ventricle	heart

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