Variant report

Variant	rs55642352
Chromosome Location	chr9:94055392-94055393
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10991837	0.83[EUR][1000 genomes]
rs10991848	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10991849	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10991853	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10991880	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10991882	0.94[EUR][1000 genomes]
rs10991900	0.91[EUR][1000 genomes]
rs12683737	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1331691	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1397575	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907358	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16907394	0.94[EUR][1000 genomes]
rs1848984	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1877125	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4480236	0.82[EUR][1000 genomes]
rs59727648	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479337	0.88[EUR][1000 genomes]
rs7019926	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7020893	0.89[EUR][1000 genomes]
rs7028794	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7042178	0.82[EUR][1000 genomes]
rs7849152	0.86[EUR][1000 genomes]
rs7852888	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7857616	0.83[EUR][1000 genomes]
rs7866204	0.92[EUR][1000 genomes]
rs7868501	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9792678	0.81[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	nsv893570	chr9:93973938-94148084	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv482877	chr9:93979351-94157734	Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94011400-94055400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr9:94019000-94056600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:94019200-94059200	Weak transcription	Spleen	Spleen
4	chr9:94019400-94068200	Weak transcription	Right Ventricle	heart
5	chr9:94024800-94059400	Weak transcription	Pancreas	Pancrea
6	chr9:94029400-94080000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:94032800-94057000	Weak transcription	Aorta	Aorta
8	chr9:94033800-94096400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:94035400-94064800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr9:94037400-94060200	Weak transcription	NHDF-Ad	bronchial
11	chr9:94039200-94089800	Weak transcription	Esophagus	oesophagus
12	chr9:94039400-94060800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr9:94040600-94056000	Weak transcription	Gastric	stomach
14	chr9:94041000-94055400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr9:94041600-94059200	Weak transcription	Lung	lung
16	chr9:94042000-94071800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr9:94042200-94055400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr9:94042600-94055800	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:94044000-94056200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr9:94044000-94057200	Weak transcription	Thymus	Thymus
21	chr9:94044800-94058000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr9:94044800-94060800	Weak transcription	HMEC	breast
23	chr9:94044800-94062800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr9:94045000-94055400	Weak transcription	HepG2	liver
25	chr9:94045000-94057200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr9:94045000-94063000	Weak transcription	Psoas Muscle	Psoas
27	chr9:94048200-94057000	Weak transcription	Brain Angular Gyrus	brain
28	chr9:94048600-94055400	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:94048600-94056200	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr9:94048800-94055400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr9:94048800-94057800	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr9:94048800-94060200	Weak transcription	Osteobl	bone
33	chr9:94048800-94065000	Weak transcription	A549	lung
34	chr9:94049400-94065000	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr9:94050200-94056000	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr9:94052000-94119200	Weak transcription	Small Intestine	intestine
37	chr9:94052200-94058000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr9:94052200-94059800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr9:94052200-94060000	Strong transcription	Fetal Intestine Small	intestine
40	chr9:94052400-94060200	Strong transcription	Fetal Intestine Large	intestine
41	chr9:94052600-94059000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr9:94052600-94059600	Strong transcription	Fetal Muscle Trunk	muscle
43	chr9:94052600-94059800	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr9:94053000-94056400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:94053200-94057400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr9:94053400-94055400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr9:94053400-94059200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr9:94053400-94061000	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr9:94053400-94103800	Weak transcription	HSMMtube	muscle
50	chr9:94053600-94055400	Weak transcription	GM12878-XiMat	blood

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