Variant report

Variant	rs914417
Chromosome Location	chr9:96359795-96359796
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:71813631..71816103-chr9:96358029..96360517,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000149357	Chromatin interaction
ENSG00000238768	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10046907	1.00[CHB][hapmap]
rs10119832	1.00[ASN][1000 genomes]
rs10122014	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10512226	0.82[CHB][hapmap]
rs10739952	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1317260	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13286188	0.86[CHB][hapmap]
rs1331588	0.82[CHB][hapmap]
rs16909211	1.00[CHB][hapmap]
rs1810886	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2250236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2254715	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2265573	0.85[CEU][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2274851	1.00[ASN][1000 genomes]
rs2994366	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2994368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3897285	0.85[CHB][hapmap]
rs4146138	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs55934002	0.92[ASN][1000 genomes]
rs58782393	1.00[ASN][1000 genomes]
rs62573992	0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7020195	0.82[CHB][hapmap]
rs7033849	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7038564	1.00[CHB][hapmap]
rs7044283	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs73651271	1.00[ASN][1000 genomes]
rs7857165	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7869286	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7874126	0.85[CHB][hapmap]
rs9299409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];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:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96341800-96362200	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr9:96343400-96360600	Weak transcription	Dnd41	blood
3	chr9:96345000-96362600	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr9:96347600-96360600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:96348400-96360200	Weak transcription	Primary B cells from cord blood	blood
6	chr9:96348400-96360200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr9:96349000-96365800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr9:96352400-96360200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:96352400-96361000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:96352400-96366000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:96352400-96369200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr9:96352400-96384600	Weak transcription	NHLF	lung
13	chr9:96352600-96362400	Weak transcription	Fetal Lung	lung
14	chr9:96352800-96360600	Weak transcription	Thymus	Thymus
15	chr9:96352800-96360800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr9:96353000-96360000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr9:96353000-96360400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr9:96353400-96360000	Weak transcription	Brain Germinal Matrix	brain
19	chr9:96354200-96361400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr9:96354400-96360000	Weak transcription	Fetal Brain Female	brain
21	chr9:96354600-96359800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr9:96355000-96361800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr9:96355200-96359800	Weak transcription	Brain Anterior Caudate	brain
24	chr9:96355200-96360000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr9:96355200-96360400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:96355200-96360400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr9:96355200-96362600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:96355200-96362800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr9:96355200-96362800	Weak transcription	Brain Angular Gyrus	brain
30	chr9:96355400-96360600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr9:96355400-96361200	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr9:96355400-96361400	Weak transcription	Colon Smooth Muscle	Colon
33	chr9:96355600-96360000	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr9:96355600-96360000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr9:96355600-96360600	Weak transcription	HepG2	liver
36	chr9:96356200-96360200	Weak transcription	Brain Cingulate Gyrus	brain
37	chr9:96356200-96360600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr9:96356400-96360400	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr9:96356400-96364000	Enhancers	Primary T helper cells PMA-I stimulated	--
40	chr9:96356600-96365600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr9:96356800-96362600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr9:96357000-96360000	Weak transcription	Brain Substantia Nigra	brain
43	chr9:96357000-96360200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr9:96357000-96360200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr9:96357000-96360200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr9:96357000-96360200	Weak transcription	Fetal Heart	heart
47	chr9:96357000-96360200	Weak transcription	Fetal Intestine Large	intestine
48	chr9:96357000-96360200	Weak transcription	Placenta	Placenta
49	chr9:96357000-96360800	Weak transcription	Adipose Nuclei	Adipose
50	chr9:96357000-96360800	Weak transcription	Colonic Mucosa	Colon

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