Variant report

Variant	rs56308044
Chromosome Location	chr2:173560182-173560183
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:173558154..173560301-chr2:173561566..173564675,4	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10166107	0.86[EUR][1000 genomes]
rs10166642	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10172894	0.80[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs10190099	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10198425	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs10198426	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs10198546	0.85[EUR][1000 genomes]
rs10205076	0.82[EUR][1000 genomes]
rs10205126	0.80[EUR][1000 genomes]
rs10210195	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11887904	0.82[EUR][1000 genomes]
rs11888564	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11891071	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11894913	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11897396	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11898565	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11899594	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11902043	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12328591	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12328781	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12329241	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13384609	0.82[EUR][1000 genomes]
rs13387816	0.82[EUR][1000 genomes]
rs13389072	0.92[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13400719	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13408965	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13411408	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs13417913	0.85[EUR][1000 genomes]
rs13420845	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13422388	0.82[EUR][1000 genomes]
rs13423020	0.84[AFR][1000 genomes]
rs13423248	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13425350	0.82[EUR][1000 genomes]
rs13427701	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13427921	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13428122	0.84[EUR][1000 genomes]
rs13432176	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1451447	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1597647	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1839767	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167374	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs28541707	0.83[EUR][1000 genomes]
rs28670307	0.82[EUR][1000 genomes]
rs28690076	0.84[EUR][1000 genomes]
rs3816536	0.80[EUR][1000 genomes]
rs57104776	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs59648896	0.81[EUR][1000 genomes]
rs62168072	0.83[EUR][1000 genomes]
rs62169319	0.82[EUR][1000 genomes]
rs62169322	0.89[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs62169324	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs62169325	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs62169326	0.80[AFR][1000 genomes]
rs6717366	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6717851	0.84[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs6724116	0.85[EUR][1000 genomes]
rs6741433	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6757567	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	esv2760591	chr2:173396905-173719520	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv583665	chr2:173460640-173643087	Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173556800-173564600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr2:173558800-173560400	Weak transcription	Esophagus	oesophagus
3	chr2:173558800-173562200	Weak transcription	NH-A	brain
4	chr2:173558800-173562400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr2:173558800-173562400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr2:173558800-173562400	Weak transcription	HUVEC	blood vessel
7	chr2:173558800-173563000	Weak transcription	Rectal Smooth Muscle	rectum
8	chr2:173559000-173560400	Enhancers	Primary neutrophils fromperipheralblood	blood
9	chr2:173559000-173561800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr2:173559000-173561800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr2:173559000-173561800	Weak transcription	Hela-S3	cervix
12	chr2:173559000-173562000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr2:173559000-173562000	Weak transcription	HMEC	breast
14	chr2:173559000-173562000	Weak transcription	HSMM	muscle
15	chr2:173559000-173562400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr2:173559000-173562600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr2:173559000-173562600	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr2:173559000-173563000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr2:173559200-173562000	Weak transcription	A549	lung
20	chr2:173559400-173561800	Weak transcription	NHDF-Ad	bronchial
21	chr2:173559400-173561800	Weak transcription	NHEK	skin
22	chr2:173559400-173561800	Weak transcription	NHLF	lung
23	chr2:173559400-173562000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr2:173559400-173562000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr2:173559400-173562000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr2:173559400-173562600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr2:173559600-173562600	Weak transcription	Primary monocytes fromperipheralblood	blood

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