Variant report

Variant	rs12555829
Chromosome Location	chr9:97760965-97760966
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97671639..97694679-chr9:97760418..97786060,142	MCF-7	breast:
2	chr9:97758403..97762885-chr9:97763631..97766514,4	K562	blood:
3	chr9:97604275..97607037-chr9:97760784..97762410,2	K562	blood:
4	chr9:97674991..97691307-chr9:97751911..97773298,151	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1020962	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1038092	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10761371	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10993471	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12552838	1.00[CEU][hapmap]
rs12553869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12554454	1.00[CEU][hapmap]
rs12555128	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs1382411	0.81[AMR][1000 genomes]
rs1382412	0.81[AMR][1000 genomes]
rs1564235	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1571896	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1571897	0.85[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16911834	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16911856	1.00[JPT][hapmap]
rs1871220	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1888944	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1888945	1.00[ASN][1000 genomes]
rs1888946	1.00[ASN][1000 genomes]
rs2061798	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2061801	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2104888	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2306207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs242448	1.00[JPT][hapmap]
rs3739748	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3780560	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs41316526	0.81[AMR][1000 genomes]
rs4743975	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4743976	0.90[AMR][1000 genomes]
rs4743977	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4743978	1.00[ASN][1000 genomes]
rs4743989	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4744421	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4744429	1.00[ASN][1000 genomes]
rs4744437	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4744440	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs475413	1.00[JPT][hapmap]
rs6479589	0.90[AMR][1000 genomes]
rs66642068	0.81[AMR][1000 genomes]
rs66863985	0.81[AMR][1000 genomes]
rs67134693	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67756624	0.81[AMR][1000 genomes]
rs7022739	1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7022963	1.00[JPT][hapmap]
rs7039768	1.00[ASN][1000 genomes]
rs7046900	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs72750335	0.96[ASN][1000 genomes]
rs72750346	0.96[ASN][1000 genomes]
rs72750351	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72750359	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72750367	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750373	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73538177	0.81[AMR][1000 genomes]
rs73540087	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9299427	0.83[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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97670600-97766000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr9:97736600-97766200	Weak transcription	Right Ventricle	heart
3	chr9:97742600-97763200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:97744200-97763200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:97746000-97762000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr9:97748600-97761800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:97750000-97762200	Weak transcription	Thymus	Thymus
8	chr9:97752800-97762200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr9:97754600-97762400	Weak transcription	Primary hematopoietic stem cells	blood
10	chr9:97755200-97766400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr9:97756200-97765000	Weak transcription	Fetal Intestine Large	intestine
12	chr9:97756200-97765000	Weak transcription	Fetal Intestine Small	intestine
13	chr9:97758400-97763200	Enhancers	Liver	Liver
14	chr9:97758400-97763200	Weak transcription	HSMM	muscle
15	chr9:97758400-97764200	Weak transcription	Small Intestine	intestine
16	chr9:97758400-97765000	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr9:97758400-97766000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:97758400-97766400	Weak transcription	Gastric	stomach
19	chr9:97758600-97762000	Weak transcription	Fetal Lung	lung
20	chr9:97758600-97763200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr9:97758600-97765000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr9:97758600-97766400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr9:97758800-97763200	Weak transcription	Psoas Muscle	Psoas
24	chr9:97758800-97764600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr9:97759000-97761600	Weak transcription	Placenta	Placenta
26	chr9:97759000-97761800	Weak transcription	Aorta	Aorta
27	chr9:97759000-97762000	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr9:97759000-97762000	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr9:97759000-97762800	Weak transcription	Lung	lung
30	chr9:97759000-97763000	Weak transcription	Right Atrium	heart
31	chr9:97759000-97763000	Weak transcription	NHLF	lung
32	chr9:97759000-97763200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr9:97759000-97763200	Weak transcription	Fetal Muscle Leg	muscle
34	chr9:97759000-97763200	Weak transcription	Osteobl	bone
35	chr9:97759000-97765000	Weak transcription	Brain Hippocampus Middle	brain
36	chr9:97759000-97765000	Weak transcription	Left Ventricle	heart
37	chr9:97759000-97765200	Weak transcription	Brain Anterior Caudate	brain
38	chr9:97759200-97763000	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr9:97759200-97763000	Weak transcription	NHDF-Ad	bronchial
40	chr9:97759200-97765000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr9:97759200-97765000	Weak transcription	Fetal Kidney	kidney
42	chr9:97759200-97766200	Weak transcription	Brain Angular Gyrus	brain
43	chr9:97759200-97766200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr9:97759400-97761800	Weak transcription	Stomach Smooth Muscle	stomach
45	chr9:97759400-97761800	Weak transcription	HSMMtube	muscle
46	chr9:97759400-97762000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr9:97759400-97763000	Weak transcription	Fetal Stomach	stomach
48	chr9:97759400-97763200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr9:97759400-97763200	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr9:97759400-97763600	Weak transcription	HepG2	liver

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