Variant report

Variant	nsv524488
Chromosome Location	chr1:213120103-213120118
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	ATF2	chr1:213120109-213120594	GM12878	blood:	n/a	n/a
2	CTCF	chr1:213120020-213120170	NHLF	lung:	n/a	n/a
3	GATA3	chr1:213119178-213120132	T-47D	breast:	n/a	n/a
4	GATA3	chr1:213119661-213120189	MCF-7	breast:	n/a	n/a
5	GATA3	chr1:213119660-213120126	T-47D	breast:	n/a	n/a
6	IKZF1	chr1:213119994-213120565	GM12878	blood:	n/a	n/a
7	MTA3	chr1:213120109-213120558	GM12878	blood:	n/a	n/a
8	NFIC	chr1:213120100-213120573	GM12878	blood:	n/a	n/a
9	NR2F2	chr1:213119630-213120132	MCF-7	breast:	n/a	n/a
10	SPI1	chr1:213119939-213120600	GM12878	blood:	n/a	chr1:213120297-213120306
11	SPI1	chr1:213120115-213120512	GM12891	blood:	n/a	chr1:213120297-213120306
12	TCF3	chr1:213120112-213120458	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:213116193..213121548-chr1:213122563..213128196,5	K562	blood:
2	chr1:213114346..213116159-chr1:213119479..213121758,2	K562	blood:
3	chr1:213118180..213120592-chr1:213121155..213123228,2	K562	blood:
4	chr1:213098539..213100855-chr1:213119235..213121922,2	K562	blood:

Variant related genes	Relation type
VASH2	TF binding region
ENSG00000143494	chromatin interactions

Extended variants
information (count: 4 )
Associated
traits (count: 93 )

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs6656706	chr1:213120103-213120104	Enhancers Weak transcription	TF binding region Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs187439841	chr1:213120107-213120108	Enhancers Weak transcription	TF binding region Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
3	rs118037128	chr1:213120113-213120114	Enhancers Weak transcription	TF binding region Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
4	rs6680470	chr1:213120118-213120119	Enhancers Weak transcription	TF binding region Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a

Variant related diseases (count:93)

Disease	PMID	Source
Breast cancer	17603634	CNVD
Esophageal squamous carcinoma	21637470	CNVD
HIV/AIDS	22032296	CNVD
Schizophrenia	19415332	CNVD
Autism	22495311	CNVD
Melanoma	18172304	CNVD
Rett syndrome	21593744	CNVD
Medulloblastoma	21979893	CNVD
Cancer	20164919	CNVD
Acute lymphoblastic leukemia	17443227	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
Acute lymphoblastic leukemia	21098271	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
Prostate cancer	18632612	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
Endometrioid adenocarcinoma	16974079	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Basal cell lymphoma	17170743	CNVD
Follicular lymphoma	17170743	CNVD
Trisomy 5 syndrome	21098271	CNVD
Urothelial carcinoma	21177765	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Chordoma	18071362	CNVD
Multiple myeloma	16461302	CNVD
van der Woude syndrome	22470819	CNVD
van der Woude syndrome	20818247	CNVD
T-cell lymphomas	19863542	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hepatocellular carcinoma	16750200	CNVD
Cancer	17060936	CNVD
Atypical hemolytic uremic syndrome	19861685	CNVD
Hepatocellular carcinoma	18803288	CNVD
Urothelial tumor	18831757	CNVD
Lung cancer	18438408	CNVD
Ovarian cancer	21720365	CNVD
small cell lung cancer	20016488	CNVD
Ovarian clear cell carcinoma	19293255	CNVD
Medulloblastoma	16783165	CNVD
Hirschsprung''s Disease	21712996	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Holoprosencephaly	19184110	CNVD
Breast cancer	21069454	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Mental retardation	19951919	CNVD
Non-syndromic sensorineural hearing loss	17873649	CNVD
Pancreatic cancer	17952125	CNVD
T-cell lymphomas	22341440	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:213116000-213121200	Enhancers	GM12878-XiMat	blood
2	chr1:213116400-213123400	Weak transcription	Right Atrium	heart
3	chr1:213118800-213120800	Enhancers	Primary B cells from cord blood	blood
4	chr1:213119400-213120200	Enhancers	H9 Cell Line	embryonic stem cell
5	chr1:213119400-213120200	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr1:213119600-213120200	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr1:213119600-213120400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr1:213119600-213120400	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr1:213119600-213121200	Enhancers	Primary B cells from peripheral blood	blood
10	chr1:213119800-213120200	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr1:213119800-213120200	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr1:213120000-213120400	Enhancers	ES-WA7 Cell Line	embryonic stem cell

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