Variant report

Variant	nsv516536
Chromosome Location	chr19:22610740-22622753
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF98-9	chr19:22618464-22618808	NONHSAT063787

Extended variants
information (count: 70 )
Associated
traits (count: 44 )

Variant overlapped rSNPs/rCNVs (count:70 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs10418950	chr19:22610740-22610741	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription	n/a	n/a	Overlapped CNVs	mRNA abundance
2	rs544521725	chr19:22610791-22610792	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs562656919	chr19:22610817-22610818	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs188829099	chr19:22610842-22610843	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs193101122	chr19:22610854-22610855	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs73027997	chr19:22610911-22610912	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
7	rs138182129	chr19:22610913-22610914	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs527797092	chr19:22610920-22610921	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs552255232	chr19:22610923-22610924	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs34476694	chr19:22610964-22610965	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs113726774	chr19:22610993-22610994	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs190371244	chr19:22611064-22611065	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
13	rs550487080	chr19:22611070-22611071	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
14	rs568309983	chr19:22611115-22611116	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
15	rs55676382	chr19:22611128-22611129	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
16	rs535603570	chr19:22611183-22611184	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
17	rs10420033	chr19:22611191-22611192	ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
18	rs566194097	chr19:22611265-22611266	ZNF genes & repeats Bivalent/Poised TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
19	rs930225	chr19:22611266-22611267	ZNF genes & repeats Bivalent/Poised TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
20	rs533907318	chr19:22611304-22611305	ZNF genes & repeats Bivalent/Poised TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
21	rs558244935	chr19:22611326-22611327	ZNF genes & repeats Bivalent/Poised TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
22	rs111593741	chr19:22611340-22611341	ZNF genes & repeats Bivalent/Poised TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
23	rs370807339	chr19:22611357-22611358	ZNF genes & repeats Bivalent/Poised TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
24	rs537740437	chr19:22611426-22611427	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
25	rs556544758	chr19:22611457-22611458	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
26	rs574788450	chr19:22611468-22611469	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
27	rs181003220	chr19:22611519-22611520	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
28	rs554026124	chr19:22611566-22611567	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
29	rs572423024	chr19:22611605-22611606	Active TSS	n/a	n/a	Overlapped CNVs	n/a
30	rs547653818	chr19:22611645-22611646	Active TSS	n/a	n/a	Overlapped CNVs	n/a
31	rs185904851	chr19:22611672-22611673	Active TSS	n/a	n/a	Overlapped CNVs	n/a
32	rs200886173	chr19:22611674-22611675	Active TSS	n/a	n/a	Overlapped CNVs	n/a
33	rs557929269	chr19:22611784-22611785	Active TSS	n/a	n/a	Overlapped CNVs	n/a
34	rs546308155	chr19:22611790-22611791	Active TSS	n/a	n/a	Overlapped CNVs	n/a
35	rs564310404	chr19:22611805-22611806	Active TSS	n/a	n/a	Overlapped CNVs	n/a
36	rs112338908	chr19:22611807-22611808	Active TSS	n/a	n/a	Overlapped CNVs	n/a
37	rs371048659	chr19:22611818-22611819	Active TSS	n/a	n/a	Overlapped CNVs	n/a
38	rs531775472	chr19:22611905-22611906	Active TSS	n/a	n/a	Overlapped CNVs	n/a
39	rs543411766	chr19:22611921-22611922	Active TSS	n/a	n/a	Overlapped CNVs	n/a
40	rs375600350	chr19:22611934-22611935	Active TSS	n/a	n/a	Overlapped CNVs	n/a
41	rs146259634	chr19:22611943-22611944	Active TSS	n/a	n/a	Overlapped CNVs	n/a
42	rs529556748	chr19:22612041-22612042	Active TSS	n/a	n/a	Overlapped CNVs	n/a
43	rs115464063	chr19:22612078-22612079	Active TSS	n/a	n/a	Overlapped CNVs	n/a
44	rs202096511	chr19:22612101-22612102	Active TSS	n/a	n/a	Overlapped CNVs	n/a
45	rs201227674	chr19:22612109-22612110	Active TSS	n/a	n/a	Overlapped CNVs	n/a
46	rs200261562	chr19:22612110-22612111	Active TSS	n/a	n/a	Overlapped CNVs	n/a
47	rs201961007	chr19:22612112-22612113	Active TSS	n/a	n/a	Overlapped CNVs	n/a
48	rs58515425	chr19:22612113-22612114	Active TSS	n/a	n/a	Overlapped CNVs	n/a
49	rs200791783	chr19:22612121-22612122	Active TSS	n/a	n/a	Overlapped CNVs	n/a
50	rs201818896	chr19:22612122-22612123	Active TSS	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:44)

Disease	PMID	Source
Medulloblastoma	16783165	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Prostate cancer	16573809	CNVD
Chordoma	18071362	CNVD
Metanephric adenoma	20802469	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Oligodendroglial tumors	17285580	CNVD
Oral cancer	21386901	CNVD
ovarian endometriomas	16273235	CNVD
Endometrial cancer	22040021	CNVD
Acute myeloid leukemia	16864856	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	17387387	CNVD
Cervical cancer	21063398	CNVD
Myelodysplastic syndrome	17634407	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chordoma	21602918	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Cancer	21637783	CNVD
Retinoblastoma	21504564	CNVD
Ovarian cancer	21720365	CNVD
Cancer	20164919	CNVD
Thoracic aortic aneurysm	21092924	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Prostate cancer	18632612	CNVD
Autism	22495311	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Acute lymphoblastic leukemia	21248843	CNVD
Lung cancer	18438408	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Myelofibrosis	22110671	CNVD
Cancer	21183584	CNVD
Colorectal cancer	20459617	CNVD
small cell lung cancer	20016488	CNVD
Ductal carcinoma	22052326	CNVD
Non-syndromic sensorineural hearing loss	17122850	CNVD
Cancer	20164920	CNVD
Non-syndromic sensorineural hearing loss	19587683	CNVD
Breast cancer	22522925	CNVD
Melanoma	20877625	CNVD
Pancreatic cancer	17952125	CNVD

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:22604400-22611600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
2	chr19:22604800-22610800	Weak transcription	Fetal Heart	heart
3	chr19:22609400-22611600	ZNF genes & repeats	Fetal Stomach	stomach
4	chr19:22610200-22611400	Bivalent/Poised TSS	Breast Myoepithelial Primary Cells	Breast
5	chr19:22610200-22611600	Active TSS	Right Ventricle	heart
6	chr19:22610400-22610800	Active TSS	Brain Substantia Nigra	brain
7	chr19:22610400-22610800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
8	chr19:22610400-22610800	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
9	chr19:22610400-22611000	Active TSS	Right Atrium	heart
10	chr19:22610400-22611200	Active TSS	Brain Angular Gyrus	brain
11	chr19:22610400-22611200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr19:22610400-22611200	ZNF genes & repeats	Ovary	ovary
13	chr19:22610400-22611400	Active TSS	Primary hematopoietic stem cells	blood
14	chr19:22610400-22611400	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
15	chr19:22610400-22611600	Bivalent/Poised TSS	Left Ventricle	heart
16	chr19:22610400-22611600	ZNF genes & repeats	Pancreas	Pancrea
17	chr19:22610400-22612200	Active TSS	Pancreatic Islets	Pancreatic Islet
18	chr19:22610600-22611000	Bivalent/Poised TSS	Brain Anterior Caudate	brain
19	chr19:22610600-22611000	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
20	chr19:22610600-22611000	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
21	chr19:22610600-22611200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr19:22610600-22611200	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
23	chr19:22610600-22611200	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
24	chr19:22610600-22611200	Active TSS	Placenta Amnion	Placenta Amnion
25	chr19:22610600-22611400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
26	chr19:22610800-22611000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
27	chr19:22610800-22611000	Bivalent/Poised TSS	Brain Substantia Nigra	brain
28	chr19:22610800-22611000	Enhancers	Fetal Heart	heart
29	chr19:22610800-22611000	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
30	chr19:22611000-22611200	Active TSS	Brain Inferior Temporal Lobe	brain
31	chr19:22611000-22611200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr19:22611000-22611200	Bivalent Enhancer	Lung	lung
33	chr19:22611000-22611400	ZNF genes & repeats	Right Atrium	heart
34	chr19:22611000-22611600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr19:22611200-22611800	Active TSS	Brain Cingulate Gyrus	brain
36	chr19:22611400-22611600	Enhancers	Primary hematopoietic stem cells	blood

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