Variant report

Variant	nsv827609
Chromosome Location	chr1:241585196-241586184
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr1:241585580-241585730	HRE	kidney:	n/a	n/a
2	CTCF	chr1:241585480-241585630	HMF	breast:	n/a	n/a
3	CTCF	chr1:241585520-241585670	HPAF	blood vessel:	n/a	n/a
4	CTCF	chr1:241585440-241585590	AG09319	gingival:	n/a	n/a
5	STAT3	chr1:241585417-241585671	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000225554	TF binding region

Extended variants
information (count: 33 )
Associated
traits (count: 87 )

Variant overlapped rSNPs/rCNVs (count:33 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs532215907	chr1:241585263-241585264	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs191015055	chr1:241585326-241585327	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs183529494	chr1:241585327-241585328	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs531531857	chr1:241585344-241585345	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs79047008	chr1:241585356-241585357	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs146307084	chr1:241585361-241585362	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs77120662	chr1:241585475-241585476	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
8	rs1539098	chr1:241585499-241585500	Weak transcription Enhancers	TF binding region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
9	rs570629701	chr1:241585507-241585508	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
10	rs5012572	chr1:241585523-241585524	Weak transcription Enhancers	TF binding region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
11	rs561082793	chr1:241585590-241585591	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
12	rs186721532	chr1:241585624-241585625	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
13	rs76483095	chr1:241585661-241585662	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
14	rs560106897	chr1:241585692-241585693	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
15	rs12037737	chr1:241585725-241585726	Weak transcription Enhancers	TF binding region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
16	rs57443902	chr1:241585731-241585732	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
17	rs1539099	chr1:241585802-241585803	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
18	rs138175512	chr1:241585899-241585900	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs115731499	chr1:241585904-241585905	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs191323251	chr1:241585921-241585922	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs12094986	chr1:241585974-241585975	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
22	rs77303602	chr1:241586003-241586004	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
23	rs1539100	chr1:241586018-241586019	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
24	rs57789558	chr1:241586033-241586034	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
25	rs371351587	chr1:241586063-241586064	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
26	rs527544331	chr1:241586066-241586067	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
27	rs547357470	chr1:241586069-241586070	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
28	rs570537078	chr1:241586100-241586101	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
29	rs539448200	chr1:241586101-241586102	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
30	rs1539101	chr1:241586108-241586109	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
31	rs527728451	chr1:241586143-241586144	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
32	rs569776560	chr1:241586157-241586158	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
33	rs112886680	chr1:241586163-241586164	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:87)

Disease	PMID	Source
Esophageal squamous carcinoma	21637470	CNVD
HIV/AIDS	22032296	CNVD
Schizophrenia	19415332	CNVD
Melanoma	18172304	CNVD
Rett syndrome	21593744	CNVD
Medulloblastoma	21979893	CNVD
Cancer	20164919	CNVD
Wilms tumour	21544195	CNVD
Breast cancer	17133270	CNVD
Non-small cell lung cancer	21044232	CNVD
Cervical cancer	21063398	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	20632083	CNVD
Endometrial cancer	22040021	CNVD
Ewing''s sarcoma	21437220	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	21080181	CNVD
Hepatocellular carcinoma	22174799	CNVD
Medulloblastoma	21292688	CNVD
Phyllodes tumor	17334353	CNVD
Breast cancer	21264507	CNVD
Liposarcoma	21253554	CNVD
Multiple myeloma	21628407	CNVD
Cancer	16751803	CNVD
Prostate cancer	16705090	CNVD
Neuroblastoma	19435921	CNVD
Breast cancer	17850661	CNVD
Breast cancer	16461572	CNVD
Intracranial tumor	16823260	CNVD
Medulloblastoma	18056178	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Primary mediastinal b-cell lymphoma	17728785	CNVD
Colorectal cancer	16272173	CNVD
Breast cancer	17603634	CNVD
Neuroblastoma	21899760	CNVD
Breast cancer	21858162	CNVD
Non-small cell lung cancer	21385341	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Breast cancer	16608533	CNVD
Ewing''s sarcoma	22429812	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	17001317	CNVD
Acute myeloid leukemia	21251322	CNVD
Multiple myeloma	17550852	CNVD
Acute myeloid leukemia	20729466	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Testicular germ cell tumor	18059402	CNVD
Ependymoma	18628472	CNVD
Leukemia	18628472	CNVD
Neuroblastoma	18923191	CNVD
Acute lymphoblastic leukemia	19100363	CNVD
Breast cancer	21509527	CNVD
Urothelial carcinoma	21177765	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Chordoma	18071362	CNVD
T-cell lymphomas	19863542	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hepatocellular carcinoma	18803288	CNVD
Urothelial tumor	18831757	CNVD
Lung cancer	18438408	CNVD
Medulloblastoma	16783165	CNVD
Basal cell lymphoma	17170743	CNVD
Basal cell lymphoma	17053054	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Congenital abnormalities	21549014	CNVD
Developmental delay	21549014	CNVD
Mental retardation	21549014	CNVD
small cell lung cancer	20016488	CNVD
Cancer	20164920	CNVD
Cancer	17060936	CNVD
abnormal development	18461090	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Myelofibrosis	22110671	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
Myxofibrosarcoma	16751306	CNVD
Non-small cell lung cancer	21829676	CNVD
Hepatocellular carcinoma	16750200	CNVD
Arrhythmogenic right ventricular cardiomyopathy	17576883	CNVD
Multiple myeloma	16616336	CNVD
Developmental delay	21147756	CNVD
Ovarian cancer	21720365	CNVD
Schizophrenia	17989066	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:241574200-241587000	Weak transcription	Gastric	stomach
2	chr1:241577600-241586600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr1:241578000-241586000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:241582000-241585400	Weak transcription	NHLF	lung
5	chr1:241582200-241586600	Enhancers	NHDF-Ad	bronchial
6	chr1:241583600-241586000	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr1:241584000-241587000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr1:241585000-241586600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:241585400-241586800	Enhancers	NHLF	lung
10	chr1:241585600-241585800	Enhancers	Osteobl	bone
11	chr1:241585600-241586400	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr1:241585800-241586600	Weak transcription	Osteobl	bone
13	chr1:241586000-241586200	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr1:241586000-241586200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr1:241586000-241586600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr1:241586000-241586800	Active TSS	Brain Anterior Caudate	brain
17	chr1:241586000-241587000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin

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