Variant report

Variant	nsv895878
Chromosome Location	chr10:89959082-90006507
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:89964521..89966509-chr10:89967760..89970508,2	K562	blood:
2	chr10:89938451..89939263-chr10:89979944..89980791,2	MCF-7	breast:
3	chr10:89992952..89996899-chr10:90003081..90006221,4	MCF-7	breast:
4	chr10:89621895..89624449-chr10:89971012..89972709,2	MCF-7	breast:
5	chr10:89964521..89966509-chr10:89967760..89970508,2	K562	blood:
6	chr10:89968668..89970425-chr10:90144988..90146828,2	MCF-7	breast:
7	chr10:89954251..89956683-chr10:89959327..89961905,2	K562	blood:
8	chr10:89994341..89996792-chr10:90014241..90017227,2	MCF-7	breast:
9	chr10:89621639..89623890-chr10:89999287..90002524,3	MCF-7	breast:
10	chr10:89992952..89996899-chr10:90003081..90006221,4	MCF-7	breast:
11	chr10:89966415..89967173-chr13:53024501..53025175,2	MCF-7	breast:
12	chr10:89620287..89624268-chr10:89971313..89974180,3	MCF-7	breast:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTEN-10	chr10:89974937-89975518	NONHSAT015472
2	lnc-PTEN-11	chr10:89975600-89977581	NONHSAT015471
3	lnc-PTEN-11	chr10:89973666-89974232	NONHSAT015471

No data

Variant related genes	Relation type
ENSG00000136100	chromatin interactions
ENSG00000171862	chromatin interactions
ENSG00000227268	chromatin interactions

Extended variants
information (count: 1666 )
Associated
traits (count: 89 )

Variant overlapped rSNPs/rCNVs (count:1666 , 50 per page) page: 1 2 3 4 5 6 7 ... 34

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs536243	chr10:89959082-89959083	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs546303165	chr10:89959104-89959105	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs567684768	chr10:89959137-89959138	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs532758929	chr10:89959152-89959153	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs187194637	chr10:89959153-89959154	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs61855305	chr10:89959172-89959173	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
7	rs560037394	chr10:89959221-89959222	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs377725000	chr10:89959234-89959235	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs537285936	chr10:89959244-89959245	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs368971332	chr10:89959340-89959341	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs571600332	chr10:89959382-89959383	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs141377728	chr10:89959418-89959419	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs535296612	chr10:89959436-89959437	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
14	rs553416140	chr10:89959496-89959497	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs150767623	chr10:89959547-89959548	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs191796359	chr10:89959575-89959576	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs557534758	chr10:89959578-89959579	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs139168777	chr10:89959609-89959610	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs371568690	chr10:89959615-89959616	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs35801975	chr10:89959635-89959636	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs545708821	chr10:89959647-89959648	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs12264266	chr10:89959651-89959652	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
23	rs531166682	chr10:89959690-89959691	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs528393567	chr10:89959692-89959693	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs116376363	chr10:89959695-89959696	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs561349502	chr10:89959723-89959724	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs528903604	chr10:89959821-89959822	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs550151904	chr10:89959853-89959854	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs568644864	chr10:89959859-89959860	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs549466899	chr10:89959921-89959922	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs118122001	chr10:89959962-89959963	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs74146676	chr10:89960073-89960074	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
33	rs570989452	chr10:89960075-89960076	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs77419098	chr10:89960127-89960128	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs553653913	chr10:89960146-89960147	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs114127546	chr10:89960229-89960230	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs535890554	chr10:89960274-89960275	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs557373511	chr10:89960303-89960304	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs376985568	chr10:89960344-89960345	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs17421823	chr10:89960407-89960408	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
41	rs181855934	chr10:89960436-89960437	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs556604130	chr10:89960477-89960478	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs573700208	chr10:89960483-89960484	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs538906745	chr10:89960488-89960489	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs540036913	chr10:89960496-89960497	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs185379116	chr10:89960513-89960514	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs377375612	chr10:89960574-89960575	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs565992700	chr10:89960611-89960612	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs543832112	chr10:89960622-89960623	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs562116648	chr10:89960624-89960625	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:89)

Disease	PMID	Source
Gastric cancer	17908304	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Melanoma	18172304	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Ewing''s sarcoma	17952124	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Acute lymphoblastic leukemia	20724749	CNVD
Autism	22495311	CNVD
Prostate cancer	18632612	CNVD
Cockayne syndrome	18421352	CNVD
Glioblastoma	16823260	CNVD
Medulloblastoma	16968546	CNVD
Neuroblastoma	17533364	CNVD
Squamous cell cancer	21044232	CNVD
Glioma	21971842	CNVD
Cancer	21637783	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Colorectal cancer	20709793	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oligodendroglial tumors	17285580	CNVD
Lung cancer	18438408	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Usher syndrome	20538994	CNVD
Medulloblastoma	16783165	CNVD
Breast cancer	21785460	CNVD
Acute myeloid leukemia	20729466	CNVD
Prostate cancer	16573809	CNVD
Paraganglioma	17535989	CNVD
Submicroscopic aberration syndrome	21292638	CNVD
Gastrointestinal stromal cancer	17535989	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Pulmonary chondroma	17535989	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Colorectal cancer	18645599	CNVD
Polyposis syndrome	18645599	CNVD
Prostate cancer	17245344	CNVD
Glioblastoma multiforme	17369134	CNVD
Glioblastoma multiforme	21750150	CNVD
Breast cancer	22032731	CNVD
Ovarian cancer	20844748	CNVD
Glioblastoma multiforme	17002787	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	17603634	CNVD
Glioblastoma multiforme	17387387	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Breast cancer	21364760	CNVD
T-cell acute lymphoblastic leukemia	19406988	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Wilms tumour	21544195	CNVD
Cancer	20164919	CNVD
Melanoma	17363583	CNVD
small cell lung cancer	20016488	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Urothelial carcinoma	21177765	CNVD
Cancer	20164920	CNVD
Esophageal adenocarcinoma	18519675	CNVD
Colorectal cancer	19359472	CNVD
Neurocytoma	17123091	CNVD
Prostate cancer	16461572	CNVD
Basal-like breast cancer	18066063	CNVD
Effusion lymphoma	18079361	CNVD
Prostate cancer	21147910	CNVD
Lung cancer	21911935	CNVD
Myelofibrosis	22110671	CNVD
Prostate cancer	21088497	CNVD
Breast cancer	22048815	CNVD
Cutaneous T-cell lymphoma	21881587	CNVD
Glioblastoma multiforme	22291905	CNVD
Glioblastoma multiforme	19435819	CNVD
Glioblastoma multiforme	22286061	CNVD
Intracranial ependymoma	16609018	CNVD
Breast cancer	16397240	CNVD
Chronic lymphocytic leukemia	21049055	CNVD
Cervical cancer	21062161	CNVD
Non-small cell lung cancer	21829676	CNVD
Melanoma	24453001	CNVD
Breast cancer	16608533	CNVD
Congenital anomalies of the kidney and urinary tract	18852474	CNVD

Chromatin state (count:906 , 50 per page) page: 1 2 3 4 5 6 7 ... 19

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89951000-89965600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr10:89955200-89960000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:89955400-89959200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr10:89955400-89960400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr10:89955400-89962400	Weak transcription	Left Ventricle	heart
6	chr10:89955400-89963800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr10:89955400-89965000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr10:89955400-89998000	Weak transcription	Aorta	Aorta
9	chr10:89956200-89959600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr10:89956400-89959200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr10:89956400-89960000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr10:89956600-89960400	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:89958600-89960200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:89959200-89960200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr10:89959200-89961400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr10:89959200-89961600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr10:89959600-89961800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr10:89960000-89960400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr10:89960000-89960800	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:89960000-89960800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr10:89960000-89960800	Enhancers	Brain Substantia Nigra	brain
22	chr10:89960000-89961200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr10:89960000-89961400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr10:89960200-89960400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr10:89960200-89960400	Enhancers	HepG2	liver
26	chr10:89960200-89960800	Enhancers	Brain Cingulate Gyrus	brain
27	chr10:89960200-89961000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr10:89960200-89961400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr10:89960400-89960600	Enhancers	Fetal Muscle Leg	muscle
30	chr10:89960400-89961400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr10:89960600-89961000	Weak transcription	Fetal Muscle Leg	muscle
32	chr10:89960800-89961600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr10:89960800-89965600	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr10:89961000-89961200	Enhancers	HepG2	liver
35	chr10:89961000-89961400	Enhancers	Fetal Muscle Leg	muscle
36	chr10:89961400-89964400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr10:89961600-89964600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr10:89961800-89964600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr10:89962400-89962600	Enhancers	Left Ventricle	heart
40	chr10:89963800-89964400	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr10:89964400-89966200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr10:89964400-89969000	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr10:89964600-89964800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr10:89964600-89966000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr10:89964800-89965200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr10:89965000-89966200	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr10:89965200-89967800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr10:89965400-89966200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr10:89965600-89966000	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr10:89965600-89966200	Enhancers	Cortex derived primary cultured neurospheres	brain

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