Variant report

Variant	rs792456
Chromosome Location	chr10:22174541-22174542
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10508639	0.84[CEU][hapmap]
rs10740991	0.89[CEU][hapmap]
rs10764328	0.86[GIH][hapmap]
rs10764330	0.83[ASW][hapmap];0.89[CEU][hapmap];0.83[LWK][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10828264	0.81[GIH][hapmap]
rs10828266	0.89[CEU][hapmap]
rs10828283	0.81[EUR][1000 genomes]
rs1086896	0.87[EUR][1000 genomes]
rs11012794	0.84[CEU][hapmap]
rs1243194	0.88[GIH][hapmap]
rs12571634	0.84[CEU][hapmap]
rs2066270	0.89[CEU][hapmap];0.91[GIH][hapmap];0.81[MEX][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2066271	0.89[CEU][hapmap];0.91[GIH][hapmap];0.81[MEX][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2487512	0.83[EUR][1000 genomes]
rs2666750	0.81[EUR][1000 genomes]
rs2666753	0.88[TSI][hapmap];0.88[EUR][1000 genomes]
rs2666754	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap]
rs2666755	1.00[CHB][hapmap]
rs2666756	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs2666757	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap]
rs2666759	0.84[CEU][hapmap]
rs2666760	0.90[TSI][hapmap];0.82[EUR][1000 genomes]
rs2666762	0.80[EUR][1000 genomes]
rs2666768	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs2666769	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2666771	0.84[CEU][hapmap];0.81[MEX][hapmap];0.84[TSI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2666772	0.89[CEU][hapmap];0.94[GIH][hapmap]
rs2666775	0.83[ASW][hapmap];0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[LWK][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2666776	0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap]
rs2666779	0.89[CEU][hapmap];0.91[GIH][hapmap];0.81[MEX][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2666781	0.80[EUR][1000 genomes]
rs2666782	0.84[CEU][hapmap]
rs2793341	0.81[EUR][1000 genomes]
rs2793351	0.89[EUR][1000 genomes]
rs2793352	0.89[EUR][1000 genomes]
rs2807968	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap]
rs2807971	0.84[CEU][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes]
rs2807972	1.00[CHB][hapmap]
rs2807979	0.84[CEU][hapmap]
rs2807980	0.85[EUR][1000 genomes]
rs2807983	0.80[EUR][1000 genomes]
rs2807984	0.84[CEU][hapmap]
rs2807985	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[GIH][hapmap]
rs2807986	0.89[CEU][hapmap]
rs2807987	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs2807988	0.83[EUR][1000 genomes]
rs2859622	0.84[CEU][hapmap]
rs2998360	0.89[CEU][hapmap];0.94[GIH][hapmap]
rs4024198	0.84[CEU][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes]
rs4146689	0.84[CEU][hapmap]
rs4364959	0.84[CEU][hapmap];0.88[GIH][hapmap]
rs4748775	0.83[CEU][hapmap];0.96[YRI][hapmap];0.85[AMR][1000 genomes]
rs4748776	0.84[CEU][hapmap];0.88[GIH][hapmap]
rs4748777	0.87[CEU][hapmap]
rs4748779	0.84[CEU][hapmap]
rs7089656	0.84[CEU][hapmap]
rs7904395	0.81[EUR][1000 genomes]
rs792453	0.89[CEU][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792455	0.89[CEU][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs792458	0.91[EUR][1000 genomes]
rs806774	0.89[CEU][hapmap]

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	nsv1052464	chr10:21856531-22220087	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv1802317	chr10:21866085-22288132	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	esv1793816	chr10:22088054-22285371	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs792456	MLLT10	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22140800-22174800	Weak transcription	HSMM	muscle
2	chr10:22149600-22180200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:22153000-22200600	Weak transcription	Osteobl	bone
4	chr10:22160400-22178600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr10:22160400-22195600	Weak transcription	NHEK	skin
6	chr10:22161400-22207600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr10:22162200-22178000	Weak transcription	Pancreas	Pancrea
8	chr10:22162200-22201600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr10:22162400-22177600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr10:22163000-22188000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:22163200-22182200	Weak transcription	Placenta	Placenta
12	chr10:22163400-22178000	Weak transcription	Fetal Stomach	stomach
13	chr10:22163400-22178000	Weak transcription	Fetal Thymus	thymus
14	chr10:22163400-22191200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr10:22164400-22184800	Weak transcription	Spleen	Spleen
16	chr10:22164400-22186400	Weak transcription	Esophagus	oesophagus
17	chr10:22164600-22177600	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr10:22164600-22188200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:22164800-22178000	Weak transcription	Aorta	Aorta
20	chr10:22164800-22178800	Weak transcription	Lung	lung
21	chr10:22164800-22187800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr10:22165400-22177600	Weak transcription	Fetal Intestine Small	intestine
23	chr10:22167000-22182000	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr10:22167200-22177400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr10:22167200-22196600	Weak transcription	Small Intestine	intestine
26	chr10:22167600-22193400	Weak transcription	Brain Substantia Nigra	brain
27	chr10:22170400-22174600	Weak transcription	Brain Hippocampus Middle	brain
28	chr10:22170400-22179400	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr10:22170600-22178000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr10:22170600-22178600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr10:22170600-22183400	Weak transcription	K562	blood
32	chr10:22170600-22188000	Weak transcription	Ovary	ovary
33	chr10:22170600-22192200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr10:22170600-22200200	Weak transcription	Rectal Smooth Muscle	rectum
35	chr10:22170800-22180200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr10:22170800-22181600	Weak transcription	Colon Smooth Muscle	Colon
37	chr10:22171000-22174600	Weak transcription	Primary T cells from cord blood	blood
38	chr10:22171200-22174600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:22171200-22174600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr10:22171200-22177600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr10:22171200-22178000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr10:22171200-22179000	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr10:22171200-22179400	Weak transcription	Duodenum Mucosa	Duodenum
44	chr10:22171200-22183200	Weak transcription	Left Ventricle	heart
45	chr10:22171200-22184800	Weak transcription	Right Ventricle	heart
46	chr10:22171200-22192400	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr10:22171200-22197000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr10:22171400-22179400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr10:22172000-22175400	Weak transcription	Primary hematopoietic stem cells	blood
50	chr10:22172200-22179000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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