Variant report

Variant	rs56402523
Chromosome Location	chr20:16363131-16363132
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16358739..16360816-chr20:16361269..16364675,3	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1008506	0.86[AFR][1000 genomes]
rs10485555	0.86[AFR][1000 genomes]
rs10485556	0.86[AFR][1000 genomes]
rs12479497	0.86[AFR][1000 genomes]
rs12480660	0.86[AFR][1000 genomes]
rs12480678	0.86[AFR][1000 genomes]
rs17673447	0.86[AFR][1000 genomes]
rs17673673	0.86[AFR][1000 genomes]
rs17740473	1.00[AFR][1000 genomes]
rs17741318	0.86[AFR][1000 genomes]
rs17741475	0.86[AFR][1000 genomes]
rs2144896	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2180472	1.00[AFR][1000 genomes]
rs34122290	1.00[AFR][1000 genomes]
rs34550969	1.00[AFR][1000 genomes]
rs34761754	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4813218	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4814479	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56072219	0.86[AFR][1000 genomes]
rs56085833	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56132807	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56363883	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56368069	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6034499	0.86[AFR][1000 genomes]
rs6080271	1.00[AFR][1000 genomes]
rs6111143	1.00[AFR][1000 genomes]
rs73597772	0.86[AFR][1000 genomes]
rs8118656	1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833931	chr20:16308276-16460596	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16315400-16364400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr20:16316000-16384400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr20:16318800-16368200	Weak transcription	Primary B cells from cord blood	blood
4	chr20:16334000-16377400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr20:16341200-16371600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr20:16342600-16377400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr20:16343600-16366800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr20:16343600-16384600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr20:16344400-16380200	Weak transcription	HSMMtube	muscle
10	chr20:16344800-16371400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr20:16344800-16377400	Weak transcription	Brain Angular Gyrus	brain
12	chr20:16345000-16391200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr20:16345400-16377400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr20:16345400-16391000	Weak transcription	Brain Germinal Matrix	brain
15	chr20:16346400-16363200	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr20:16346600-16393600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr20:16347200-16368200	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr20:16347600-16392000	Weak transcription	Fetal Kidney	kidney
19	chr20:16348400-16383600	Weak transcription	Small Intestine	intestine
20	chr20:16349000-16371800	Weak transcription	Stomach Mucosa	stomach
21	chr20:16349200-16365000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr20:16349200-16380000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr20:16349400-16364200	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr20:16349600-16372200	Weak transcription	Colonic Mucosa	Colon
25	chr20:16349600-16376400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr20:16349800-16381600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr20:16350000-16366200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr20:16350000-16384000	Weak transcription	HepG2	liver
29	chr20:16350000-16384200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr20:16350200-16368200	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr20:16350600-16375000	Weak transcription	Colon Smooth Muscle	Colon
32	chr20:16350800-16384200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr20:16353000-16384200	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr20:16355000-16377400	Weak transcription	Psoas Muscle	Psoas
35	chr20:16355400-16380400	Weak transcription	A549	lung
36	chr20:16355400-16385200	Weak transcription	Brain Substantia Nigra	brain
37	chr20:16355600-16377400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr20:16356000-16384200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr20:16356200-16380000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr20:16356800-16372000	Weak transcription	NHEK	skin
41	chr20:16357000-16364600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr20:16357200-16383600	Weak transcription	Brain Anterior Caudate	brain
43	chr20:16357800-16385400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr20:16359800-16387800	Weak transcription	Placenta	Placenta
45	chr20:16360000-16364400	Weak transcription	Gastric	stomach
46	chr20:16360000-16366000	Weak transcription	Fetal Heart	heart
47	chr20:16360400-16366000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr20:16360400-16367600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr20:16360400-16368200	Weak transcription	Aorta	Aorta
50	chr20:16360400-16377200	Weak transcription	Fetal Lung	lung

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