Variant report

Variant	rs11592937
Chromosome Location	chr10:97633470-97633471
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	chr10:97626338..97628113-chr10:97632914..97634427,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C10orf131-1	chr10:97633189-97633515	ENSG00000240527.1

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11592789	0.82[AMR][1000 genomes]
rs11594010	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11594340	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11594853	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11595122	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11596697	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11597564	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11599779	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12761960	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12763743	0.86[EUR][1000 genomes]
rs12767650	0.81[EUR][1000 genomes]
rs12770313	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12770849	0.83[EUR][1000 genomes]
rs12774334	0.84[EUR][1000 genomes]
rs12780375	0.87[EUR][1000 genomes]
rs12782273	0.86[EUR][1000 genomes]
rs3176886	0.89[EUR][1000 genomes]
rs3176888	0.87[EUR][1000 genomes]
rs3181115	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34296389	0.85[EUR][1000 genomes]
rs34332904	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34630379	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34808745	0.89[AMR][1000 genomes]
rs34833309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34836127	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34955155	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34963139	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35051706	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35691144	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35700869	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35968758	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35987262	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs36103691	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57670810	0.82[AMR][1000 genomes]
rs66527979	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs66706740	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs66751616	0.94[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs68078796	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71482374	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71482376	0.83[EUR][1000 genomes]
rs71482377	0.83[EUR][1000 genomes]
rs71482378	0.84[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	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv895908	chr10:97544513-97724247	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97601600-97635600	Weak transcription	Fetal Brain Male	brain
2	chr10:97601800-97635400	Weak transcription	Brain Substantia Nigra	brain
3	chr10:97601800-97647800	Weak transcription	Brain Cingulate Gyrus	brain
4	chr10:97602400-97655400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr10:97615400-97634400	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr10:97615800-97633800	Strong transcription	Primary neutrophils fromperipheralblood	blood
7	chr10:97615800-97634400	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr10:97619600-97655000	Weak transcription	HUVEC	blood vessel
9	chr10:97621000-97640600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr10:97621000-97666800	Weak transcription	Gastric	stomach
11	chr10:97622800-97666600	Weak transcription	Thymus	Thymus
12	chr10:97623800-97666600	Weak transcription	Right Ventricle	heart
13	chr10:97624800-97635000	Weak transcription	Small Intestine	intestine
14	chr10:97625000-97634200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:97625200-97634200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr10:97625200-97635800	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr10:97625200-97636800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr10:97625200-97655200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr10:97625400-97648600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr10:97625400-97649200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:97625400-97666400	Weak transcription	Osteobl	bone
22	chr10:97626000-97637000	Weak transcription	HSMMtube	muscle
23	chr10:97626200-97638000	Weak transcription	Fetal Kidney	kidney
24	chr10:97626400-97666400	Weak transcription	Pancreas	Pancrea
25	chr10:97626800-97634000	Weak transcription	Fetal Intestine Small	intestine
26	chr10:97626800-97639600	Weak transcription	HepG2	liver
27	chr10:97626800-97654200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr10:97627600-97633600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr10:97628000-97635600	Weak transcription	HMEC	breast
30	chr10:97628000-97666800	Weak transcription	Esophagus	oesophagus
31	chr10:97628200-97647800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr10:97628200-97655600	Weak transcription	Brain Anterior Caudate	brain
33	chr10:97628400-97636000	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr10:97628400-97657600	Weak transcription	Hela-S3	cervix
35	chr10:97628600-97634200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr10:97628600-97634200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr10:97629200-97647800	Weak transcription	NHEK	skin
38	chr10:97629200-97655200	Weak transcription	NH-A	brain
39	chr10:97629200-97663000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr10:97629800-97633600	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr10:97630000-97634200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr10:97630000-97636800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr10:97630200-97634200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr10:97630400-97636800	Strong transcription	Primary T cells from cord blood	blood
45	chr10:97630800-97633800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr10:97631000-97633600	Strong transcription	Adipose Nuclei	Adipose
47	chr10:97631000-97635600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr10:97631200-97634400	Strong transcription	Duodenum Mucosa	Duodenum
49	chr10:97631200-97634400	Strong transcription	Placenta	Placenta
50	chr10:97631200-97639200	Weak transcription	Dnd41	blood

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