Variant report

Variant	rs12685159
Chromosome Location	chr9:97419146-97419147
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97401282..97403980-chr9:97418251..97421085,4	MCF-7	breast:
2	chr9:97418815..97421643-chr9:97422033..97423738,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165140	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10081702	0.82[CEU][hapmap];0.85[GIH][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs10117956	0.86[EUR][1000 genomes]
rs10124091	0.86[EUR][1000 genomes]
rs10124217	0.86[EUR][1000 genomes]
rs12336203	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12337796	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12339221	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12339942	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12344517	0.86[EUR][1000 genomes]
rs12346245	0.86[EUR][1000 genomes]
rs12347853	0.83[EUR][1000 genomes]
rs12350284	0.86[EUR][1000 genomes]
rs13287373	0.86[EUR][1000 genomes]
rs13295608	0.86[EUR][1000 genomes]
rs13298361	0.86[EUR][1000 genomes]
rs16911536	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs16911594	0.86[EUR][1000 genomes]
rs34000226	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34089610	0.88[EUR][1000 genomes]
rs34165368	0.88[EUR][1000 genomes]
rs34540802	0.88[EUR][1000 genomes]
rs35060589	0.88[EUR][1000 genomes]
rs35414853	0.86[EUR][1000 genomes]
rs35557606	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36025648	0.88[EUR][1000 genomes]
rs36039841	0.88[EUR][1000 genomes]
rs41281164	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56338410	0.88[EUR][1000 genomes]
rs61247576	0.88[EUR][1000 genomes]
rs6479563	0.86[EUR][1000 genomes]
rs67161795	0.86[EUR][1000 genomes]
rs67845333	0.88[EUR][1000 genomes]
rs7024174	0.89[ASN][1000 genomes]
rs7028725	0.89[ASN][1000 genomes]
rs7871632	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97402400-97420000	Weak transcription	Right Atrium	heart
2	chr9:97417800-97419200	Enhancers	Primary hematopoietic stem cells	blood
3	chr9:97417800-97419200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr9:97417800-97419200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
5	chr9:97417800-97419800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr9:97418000-97419200	Flanking Active TSS	Primary B cells from cord blood	blood
7	chr9:97418000-97419200	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr9:97418000-97419200	Enhancers	Duodenum Smooth Muscle	Duodenum
9	chr9:97418000-97419200	Flanking Active TSS	GM12878-XiMat	blood
10	chr9:97418000-97419800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:97418000-97419800	Enhancers	H9 Cell Line	embryonic stem cell
12	chr9:97418200-97419200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr9:97418200-97420000	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr9:97418200-97420200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr9:97418400-97419200	Enhancers	Left Ventricle	heart
16	chr9:97418400-97419400	Bivalent Enhancer	Fetal Brain Male	brain
17	chr9:97418400-97419400	Enhancers	Psoas Muscle	Psoas
18	chr9:97418400-97419800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr9:97418400-97419800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr9:97418400-97420000	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr9:97418600-97419200	Bivalent Enhancer	Brain Germinal Matrix	brain
22	chr9:97418600-97419200	Enhancers	Fetal Heart	heart
23	chr9:97418600-97419400	Enhancers	Brain Cingulate Gyrus	brain
24	chr9:97418600-97419800	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr9:97418600-97419800	Enhancers	Fetal Muscle Leg	muscle
26	chr9:97418600-97420000	Enhancers	Fetal Muscle Trunk	muscle
27	chr9:97418800-97419200	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr9:97418800-97419200	Enhancers	Adipose Nuclei	Adipose
29	chr9:97418800-97419200	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr9:97418800-97419200	Flanking Active TSS	Dnd41	blood
31	chr9:97418800-97419400	Enhancers	Primary B cells from peripheral blood	blood
32	chr9:97418800-97419400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr9:97418800-97419400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
34	chr9:97418800-97419600	Enhancers	Brain Angular Gyrus	brain
35	chr9:97418800-97419600	Weak transcription	HSMM	muscle
36	chr9:97418800-97419800	Enhancers	Primary T cells fromperipheralblood	blood
37	chr9:97418800-97419800	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr9:97418800-97420000	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
39	chr9:97418800-97420000	Enhancers	HSMMtube	muscle
40	chr9:97418800-97420200	Enhancers	Thymus	Thymus
41	chr9:97419000-97419200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr9:97419000-97419200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr9:97419000-97419200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
44	chr9:97419000-97419200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
45	chr9:97419000-97419400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr9:97419000-97419400	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr9:97419000-97419400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr9:97419000-97419400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr9:97419000-97419400	Enhancers	Aorta	Aorta
50	chr9:97419000-97419600	Enhancers	Primary T cells from cord blood	blood

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