Variant report

Variant	rs10899922
Chromosome Location	chr10:44341964-44341965
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44340953..44343939-chr10:44348201..44350447,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10793503	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10899921	0.87[EUR][1000 genomes]
rs11238736	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs11238737	0.84[CEU][hapmap];0.87[EUR][1000 genomes]
rs11238738	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238739	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12357341	0.86[EUR][1000 genomes]
rs1870636	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4948580	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4948781	0.81[AFR][1000 genomes]
rs4948784	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4948785	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4948786	0.84[CEU][hapmap]
rs729247	0.81[AFR][1000 genomes]
rs748715	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7901526	1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs912804	0.81[AFR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10899922	LINC00840	cis	lung	GTEx
rs10899922	LOC338579	cis	cerebellum	SCAN

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44337400-44342400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr10:44338200-44342200	Enhancers	Left Ventricle	heart
3	chr10:44338200-44342800	Enhancers	NHLF	lung
4	chr10:44338400-44342800	Enhancers	Fetal Muscle Leg	muscle
5	chr10:44338800-44342200	Enhancers	HSMMtube	muscle
6	chr10:44339200-44342800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:44339200-44349400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:44339400-44342800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr10:44339400-44342800	Enhancers	NHDF-Ad	bronchial
10	chr10:44339800-44342200	Enhancers	Lung	lung
11	chr10:44339800-44342400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr10:44340600-44342000	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr10:44340600-44342200	Enhancers	Adipose Nuclei	Adipose
14	chr10:44340600-44342200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
15	chr10:44340600-44342200	Enhancers	Right Atrium	heart
16	chr10:44340600-44342400	Enhancers	Spleen	Spleen
17	chr10:44340600-44342400	Enhancers	HSMM	muscle
18	chr10:44340600-44343400	Enhancers	Ovary	ovary
19	chr10:44340800-44357600	Weak transcription	Aorta	Aorta
20	chr10:44341000-44346600	Weak transcription	Placenta	Placenta
21	chr10:44341200-44346200	Weak transcription	Stomach Mucosa	stomach
22	chr10:44341200-44347600	Weak transcription	Gastric	stomach
23	chr10:44341400-44342200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr10:44341400-44342200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr10:44341600-44342200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr10:44341600-44342200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:44341600-44342200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr10:44341600-44342200	Enhancers	Esophagus	oesophagus
29	chr10:44341600-44342200	Enhancers	Fetal Heart	heart
30	chr10:44341600-44342400	Flanking Active TSS	Dnd41	blood
31	chr10:44341600-44342800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr10:44341600-44342800	Enhancers	Primary T killer memory cells from peripheral blood	blood
33	chr10:44341600-44342800	Enhancers	Fetal Lung	lung
34	chr10:44341600-44342800	Enhancers	Fetal Thymus	thymus
35	chr10:44341800-44342000	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr10:44341800-44342000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:44341800-44342000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr10:44341800-44342000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
39	chr10:44341800-44342000	Enhancers	NHEK	skin
40	chr10:44341800-44342200	Enhancers	Primary monocytes fromperipheralblood	blood
41	chr10:44341800-44342200	Enhancers	Primary neutrophils fromperipheralblood	blood
42	chr10:44341800-44342200	Flanking Active TSS	Primary T cells from cord blood	blood
43	chr10:44341800-44342200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
44	chr10:44341800-44342200	Enhancers	Primary hematopoietic stem cells	blood
45	chr10:44341800-44342200	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
46	chr10:44341800-44342200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
47	chr10:44341800-44342200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
48	chr10:44341800-44342200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
49	chr10:44341800-44342200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
50	chr10:44341800-44342200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

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