Variant report

Variant	rs11883537
Chromosome Location	chr2:55512919-55512920
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:55509373..55510992-chr2:55512785..55514521,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162997	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10496041	0.84[AFR][1000 genomes]
rs11125562	0.83[AFR][1000 genomes]
rs12105322	0.83[AFR][1000 genomes]
rs2576694	0.80[AFR][1000 genomes]
rs2576702	0.83[AFR][1000 genomes]
rs2589061	0.86[AFR][1000 genomes]
rs2589111	0.86[AFR][1000 genomes]
rs2589116	0.83[AFR][1000 genomes]
rs57105158	0.84[AFR][1000 genomes]
rs59554860	0.84[AFR][1000 genomes]
rs6545484	0.86[AFR][1000 genomes]
rs73939905	0.83[AFR][1000 genomes]
rs9784090	0.83[AFR][1000 genomes]

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	nsv522016	chr2:55404794-55560298	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv874156	chr2:55474026-55636351	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv874157	chr2:55483020-55571085	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	esv1799450	chr2:55494904-55520842	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55501000-55517000	Weak transcription	Hela-S3	cervix
2	chr2:55509000-55541200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:55509400-55515600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:55509400-55545200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:55509600-55522600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr2:55509800-55514600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr2:55509800-55518600	Weak transcription	HMEC	breast
8	chr2:55509800-55521800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:55510000-55513600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr2:55510000-55514400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr2:55510000-55515400	Weak transcription	Brain Substantia Nigra	brain
12	chr2:55510000-55516200	Weak transcription	Fetal Lung	lung
13	chr2:55510000-55518800	Weak transcription	Brain Angular Gyrus	brain
14	chr2:55510000-55521600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr2:55510000-55521600	Weak transcription	Brain Cingulate Gyrus	brain
16	chr2:55510000-55521800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr2:55510000-55521800	Weak transcription	Fetal Brain Male	brain
18	chr2:55510000-55521800	Weak transcription	NHEK	skin
19	chr2:55510000-55522000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr2:55510000-55522200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr2:55510000-55522200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr2:55510000-55522400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr2:55510000-55522400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr2:55510000-55522600	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr2:55510000-55541600	Weak transcription	Esophagus	oesophagus
26	chr2:55510000-55553600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr2:55510000-55578800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr2:55510200-55513200	Weak transcription	Brain Germinal Matrix	brain
29	chr2:55510200-55513200	Weak transcription	Fetal Muscle Trunk	muscle
30	chr2:55510200-55513200	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr2:55510200-55513400	Weak transcription	Fetal Stomach	stomach
32	chr2:55510200-55513400	Weak transcription	HSMM	muscle
33	chr2:55510200-55513600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr2:55510200-55514600	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr2:55510200-55516000	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr2:55510200-55516200	Weak transcription	NHDF-Ad	bronchial
37	chr2:55510200-55516600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr2:55510200-55517400	Weak transcription	Fetal Brain Female	brain
39	chr2:55510200-55519200	Weak transcription	Ovary	ovary
40	chr2:55510200-55520600	Weak transcription	HSMMtube	muscle
41	chr2:55510200-55521800	Weak transcription	Fetal Kidney	kidney
42	chr2:55510200-55522200	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr2:55510200-55522400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr2:55510200-55522400	Weak transcription	NHLF	lung
45	chr2:55510200-55522600	Weak transcription	Aorta	Aorta
46	chr2:55510200-55542200	Weak transcription	Fetal Intestine Large	intestine
47	chr2:55510200-55559000	Weak transcription	Psoas Muscle	Psoas
48	chr2:55510200-55616800	Weak transcription	Fetal Intestine Small	intestine
49	chr2:55510400-55513000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr2:55510400-55513000	Weak transcription	Fetal Muscle Leg	muscle

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