Variant report

Variant	rs56195836
Chromosome Location	chr10:49525865-49525866
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:49521352..49523336-chr10:49525109..49528054,2	MCF-7	breast:
2	chr10:49513964..49516103-chr10:49525788..49528265,2	MCF-7	breast:
3	chr10:49525579..49528605-chr10:49532871..49535905,3	K562	blood:
4	chr10:49525748..49527877-chr10:49536971..49539943,2	K562	blood:

Variant related genes	Relation type
ENSG00000107643	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs17697837	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17697885	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17770615	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2141515	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2289806	0.88[ASN][1000 genomes]
rs2889612	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34278434	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41306926	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55710197	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55914834	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55923567	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56037570	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56103304	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56278337	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56361423	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56809322	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57775594	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57915819	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59797355	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60449431	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66738605	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66864000	0.81[EUR][1000 genomes]
rs66962508	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67071575	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67646014	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67967483	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72783089	0.83[AMR][1000 genomes]
rs72792260	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72792262	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72792264	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72792269	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792272	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792274	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792284	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792285	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792290	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792295	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794355	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794356	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794358	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794369	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794372	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794376	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794378	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72796303	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72796304	0.96[ASN][1000 genomes]
rs72796308	0.96[ASN][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	nsv895366	chr10:49299274-49576454	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv895368	chr10:49381635-49551560	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv467190	chr10:49402084-49576878	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv550811	chr10:49402084-49576878	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49515600-49541400	Weak transcription	Lung	lung
2	chr10:49516400-49526400	Weak transcription	Brain Substantia Nigra	brain
3	chr10:49516400-49528000	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr10:49516400-49528600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:49516400-49535000	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:49516400-49538400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr10:49516400-49538800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr10:49516400-49541400	Weak transcription	Right Atrium	heart
9	chr10:49516400-49547200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr10:49516400-49559600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:49516600-49538400	Weak transcription	Primary B cells from cord blood	blood
12	chr10:49516600-49538600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:49516600-49538600	Weak transcription	Fetal Stomach	stomach
14	chr10:49517800-49544600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr10:49518000-49526800	Weak transcription	Gastric	stomach
16	chr10:49518000-49528800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr10:49518000-49536000	Weak transcription	Fetal Intestine Small	intestine
18	chr10:49518200-49527600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:49518200-49542200	Weak transcription	HSMM	muscle
20	chr10:49518400-49526000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr10:49518600-49538400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr10:49518800-49534400	Weak transcription	Brain Germinal Matrix	brain
23	chr10:49518800-49538600	Weak transcription	Fetal Intestine Large	intestine
24	chr10:49518800-49540600	Weak transcription	NHEK	skin
25	chr10:49518800-49542000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr10:49518800-49544000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr10:49519000-49530600	Weak transcription	Fetal Brain Male	brain
28	chr10:49519000-49538600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr10:49519000-49540200	Weak transcription	HMEC	breast
30	chr10:49519400-49529600	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr10:49519400-49532200	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr10:49520200-49549800	Weak transcription	HUVEC	blood vessel
33	chr10:49520800-49527800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr10:49520800-49532000	Weak transcription	Primary hematopoietic stem cells	blood
35	chr10:49521000-49536400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr10:49521800-49526200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr10:49522800-49527000	Enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr10:49522800-49539200	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr10:49522800-49550800	Weak transcription	Small Intestine	intestine
40	chr10:49523400-49526000	Weak transcription	Brain Hippocampus Middle	brain
41	chr10:49523400-49535600	Weak transcription	Primary T cells from cord blood	blood
42	chr10:49523400-49538400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr10:49523600-49538600	Weak transcription	Colon Smooth Muscle	Colon
44	chr10:49524200-49526200	Enhancers	Dnd41	blood
45	chr10:49524200-49526400	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr10:49524200-49527000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
47	chr10:49524400-49526000	Enhancers	Cortex derived primary cultured neurospheres	brain
48	chr10:49524400-49526400	Enhancers	HUES6 Cell Line	embryonic stem cell
49	chr10:49524400-49527000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr10:49524400-49527200	Enhancers	Ovary	ovary

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