Variant report

Variant	rs10882950
Chromosome Location	chr10:99278269-99278270
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:99275579..99277366-chr10:99277998..99279617,2	MCF-7	breast:
2	chr10:99262246..99264469-chr10:99277265..99278794,2	K562	blood:
3	chr10:99278192..99281004-chr10:99284168..99285856,2	MCF-7	breast:
4	chr10:99265449..99267822-chr10:99277534..99279101,2	K562	blood:
5	chr10:99275110..99276891-chr10:99277737..99279541,2	MCF-7	breast:
6	chr10:99275538..99279686-chr10:99333593..99336127,3	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10786352	0.81[CHD][hapmap]
rs10786353	0.84[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10882947	0.81[CHD][hapmap]
rs10882949	0.85[CEU][hapmap];0.82[GIH][hapmap];0.94[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10882951	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882953	1.00[CHB][hapmap]
rs10882954	1.00[CHB][hapmap]
rs11189249	0.85[CEU][hapmap];0.82[GIH][hapmap];0.94[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11592144	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs11592973	0.81[CHD][hapmap]
rs12219922	0.82[EUR][1000 genomes]
rs1890969	0.84[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs872106	0.81[CHD][hapmap]

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	esv1817777	chr10:99196035-99558169	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv1036494	chr10:99267639-99345207	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10882950	ABCC2	cis	parietal	SCAN
rs10882950	LOXL4	cis	cerebellum	SCAN

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99270800-99286200	Enhancers	Skeletal Muscle Female	skeletal muscle
2	chr10:99271200-99279200	Enhancers	Skeletal Muscle Male	skeletal muscle
3	chr10:99273800-99283200	Enhancers	Fetal Muscle Leg	muscle
4	chr10:99273800-99283200	Enhancers	Left Ventricle	heart
5	chr10:99274200-99279600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr10:99274200-99285000	Enhancers	Right Ventricle	heart
7	chr10:99274400-99280200	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr10:99274600-99279800	Enhancers	Brain Substantia Nigra	brain
9	chr10:99274800-99279000	Enhancers	Fetal Muscle Trunk	muscle
10	chr10:99274800-99279400	Enhancers	Adipose Nuclei	Adipose
11	chr10:99275000-99293800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr10:99275400-99278600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:99275400-99279000	Enhancers	Lung	lung
14	chr10:99276000-99278400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr10:99276000-99278400	Enhancers	Spleen	Spleen
16	chr10:99276000-99284400	Weak transcription	HepG2	liver
17	chr10:99276600-99278600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr10:99276600-99278600	Enhancers	Stomach Smooth Muscle	stomach
19	chr10:99276600-99279000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr10:99276600-99279400	Enhancers	HMEC	breast
21	chr10:99276600-99279800	Enhancers	HUVEC	blood vessel
22	chr10:99276800-99278600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
23	chr10:99276800-99279000	Enhancers	Fetal Stomach	stomach
24	chr10:99276800-99279600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr10:99276800-99279800	Enhancers	Brain Hippocampus Middle	brain
26	chr10:99276800-99280000	Enhancers	HSMM	muscle
27	chr10:99276800-99281400	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr10:99277000-99279400	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr10:99277000-99279600	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr10:99277000-99279800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr10:99277000-99280400	Enhancers	Fetal Lung	lung
32	chr10:99277200-99278400	Enhancers	Primary hematopoietic stem cells short term culture	blood
33	chr10:99277200-99278400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr10:99277200-99278400	Enhancers	Ovary	ovary
35	chr10:99277200-99278600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr10:99277200-99278600	Enhancers	Right Atrium	heart
37	chr10:99277200-99279400	Enhancers	Brain Cingulate Gyrus	brain
38	chr10:99277200-99279800	Enhancers	Muscle Satellite Cultured Cells	--
39	chr10:99277200-99282800	Enhancers	HSMMtube	muscle
40	chr10:99277400-99278400	Enhancers	H1 Cell Line	embryonic stem cell
41	chr10:99277400-99278400	Enhancers	Placenta	Placenta
42	chr10:99277400-99278600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr10:99277400-99278600	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr10:99277400-99278600	Enhancers	Hela-S3	cervix
45	chr10:99277400-99278800	Enhancers	Duodenum Smooth Muscle	Duodenum
46	chr10:99277400-99279200	Enhancers	Psoas Muscle	Psoas
47	chr10:99277400-99279400	Enhancers	Brain Anterior Caudate	brain
48	chr10:99277400-99279400	Enhancers	NH-A	brain
49	chr10:99277400-99279800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr10:99277400-99279800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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