Variant report

Variant	rs55877538
Chromosome Location	chr4:16238615-16238616
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:16225599..16229737-chr4:16237110..16241898,6	MCF-7	breast:
2	chr4:16219972..16222393-chr4:16236561..16239245,2	K562	blood:
3	chr4:16235269..16243012-chr4:16245014..16252154,9	K562	blood:
4	chr4:16226523..16228832-chr4:16238449..16240604,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000263327	Chromatin interaction
ENSG00000169762	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11931779	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11940412	1.00[EUR][1000 genomes]
rs11946259	1.00[EUR][1000 genomes]
rs28418449	1.00[EUR][1000 genomes]
rs56091285	1.00[EUR][1000 genomes]
rs56358846	1.00[EUR][1000 genomes]
rs56815412	1.00[EUR][1000 genomes]
rs57110573	1.00[EUR][1000 genomes]
rs58219808	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58468710	1.00[EUR][1000 genomes]
rs59786002	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60194927	1.00[EUR][1000 genomes]
rs60616838	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6823623	1.00[EUR][1000 genomes]
rs73798737	1.00[EUR][1000 genomes]
rs73798844	1.00[EUR][1000 genomes]
rs73798846	1.00[EUR][1000 genomes]
rs73798848	1.00[EUR][1000 genomes]
rs73798849	1.00[EUR][1000 genomes]
rs73798850	1.00[EUR][1000 genomes]
rs73798856	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73798858	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73798865	1.00[EUR][1000 genomes]
rs73798866	1.00[EUR][1000 genomes]
rs73798867	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73798870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73798871	1.00[EUR][1000 genomes]
rs73798872	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73798873	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73798876	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73798882	1.00[EUR][1000 genomes]
rs73802012	1.00[EUR][1000 genomes]
rs73802027	1.00[EUR][1000 genomes]
rs7666923	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537047	chr4:16182060-16375787	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv878720	chr4:16222046-16242215	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv537048	chr4:16226406-16375787	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:16229400-16241000	Weak transcription	Aorta	Aorta
2	chr4:16229600-16254000	Weak transcription	Ovary	ovary
3	chr4:16229600-16254800	Weak transcription	Psoas Muscle	Psoas
4	chr4:16229800-16241400	Weak transcription	Primary T cells from cord blood	blood
5	chr4:16229800-16259800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr4:16230000-16244200	Weak transcription	Pancreas	Pancrea
7	chr4:16230000-16244800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:16230000-16244800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr4:16230600-16244200	Weak transcription	Fetal Muscle Leg	muscle
10	chr4:16232200-16244000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr4:16234000-16239800	Weak transcription	Stomach Mucosa	stomach
12	chr4:16234000-16252000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr4:16234000-16252400	Weak transcription	Duodenum Mucosa	Duodenum
14	chr4:16234000-16255000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr4:16234200-16244800	Weak transcription	Right Atrium	heart
16	chr4:16234200-16254400	Weak transcription	NHDF-Ad	bronchial
17	chr4:16234200-16257400	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr4:16234200-16264800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr4:16234400-16247200	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr4:16234400-16247800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr4:16234400-16247800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr4:16234400-16252200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr4:16234400-16261600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr4:16234600-16239200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr4:16234600-16246600	Weak transcription	Adipose Nuclei	Adipose
26	chr4:16234800-16239600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr4:16234800-16243600	Weak transcription	Primary hematopoietic stem cells	blood
28	chr4:16234800-16253800	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr4:16235000-16252200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr4:16235200-16239200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr4:16235400-16272800	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr4:16235600-16247200	Weak transcription	Brain Anterior Caudate	brain
33	chr4:16235600-16261600	Weak transcription	Fetal Kidney	kidney
34	chr4:16236200-16252400	Weak transcription	Right Ventricle	heart
35	chr4:16236200-16257400	Weak transcription	Left Ventricle	heart
36	chr4:16236800-16239200	Weak transcription	Primary B cells from cord blood	blood
37	chr4:16237000-16239000	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr4:16237200-16257400	Weak transcription	Brain Hippocampus Middle	brain
39	chr4:16237600-16254800	Weak transcription	Brain Substantia Nigra	brain
40	chr4:16238000-16239200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr4:16238200-16239200	Enhancers	Primary neutrophils fromperipheralblood	blood
42	chr4:16238200-16258800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr4:16238200-16266000	Weak transcription	Fetal Brain Male	brain
44	chr4:16238400-16238800	Weak transcription	Primary monocytes fromperipheralblood	blood
45	chr4:16238400-16242000	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr4:16238400-16258400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr4:16238600-16240000	Weak transcription	K562	blood
48	chr4:16238600-16245200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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