Variant report

Variant	rs2256329
Chromosome Location	chr10:90849071-90849072
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90843656..90845786-chr10:90848241..90850015,2	K562	blood:

Extended variants
information (count: 74 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10509564	0.86[ASN][1000 genomes]
rs10509565	0.86[ASN][1000 genomes]
rs10887913	0.86[ASN][1000 genomes]
rs11202956	0.84[ASN][1000 genomes]
rs11202968	0.87[ASN][1000 genomes]
rs11202971	0.87[ASN][1000 genomes]
rs11202973	0.84[ASN][1000 genomes]
rs11202974	0.87[ASN][1000 genomes]
rs11202978	0.84[ASN][1000 genomes]
rs11202984	0.86[ASN][1000 genomes]
rs11202986	0.86[ASN][1000 genomes]
rs11202987	0.86[ASN][1000 genomes]
rs11202990	0.86[ASN][1000 genomes]
rs11202991	0.86[ASN][1000 genomes]
rs11202992	0.86[ASN][1000 genomes]
rs11202995	1.00[JPT][hapmap]
rs11202996	1.00[JPT][hapmap]
rs12359686	0.86[ASN][1000 genomes]
rs1344234	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17378555	0.84[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17378702	0.84[ASN][1000 genomes]
rs17380509	0.86[ASN][1000 genomes]
rs17380676	0.86[ASN][1000 genomes]
rs17463822	0.87[ASN][1000 genomes]
rs17464831	0.86[ASN][1000 genomes]
rs17464997	0.86[ASN][1000 genomes]
rs17465248	0.86[ASN][1000 genomes]
rs1937324	0.84[ASN][1000 genomes]
rs1937331	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1937344	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1937346	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2154249	0.86[ASN][1000 genomes]
rs2154250	0.86[ASN][1000 genomes]
rs2494647	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2494650	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2801522	0.85[CEU][hapmap]
rs2801540	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28461567	0.86[ASN][1000 genomes]
rs28533190	0.86[ASN][1000 genomes]
rs2863221	0.84[ASN][1000 genomes]
rs2902448	0.83[ASN][1000 genomes]
rs4481939	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7094057	0.87[ASN][1000 genomes]
rs7099595	0.92[CEU][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs72810981	0.81[ASN][1000 genomes]
rs72810994	0.87[ASN][1000 genomes]
rs72812827	0.86[ASN][1000 genomes]
rs72812830	0.86[ASN][1000 genomes]
rs72812831	0.86[ASN][1000 genomes]
rs72812833	0.86[ASN][1000 genomes]
rs72812834	0.86[ASN][1000 genomes]
rs72812845	0.86[ASN][1000 genomes]
rs72812848	0.86[ASN][1000 genomes]
rs72812849	0.86[ASN][1000 genomes]
rs72812851	0.86[ASN][1000 genomes]
rs72812855	0.86[ASN][1000 genomes]
rs72812859	0.86[ASN][1000 genomes]
rs72812862	0.86[ASN][1000 genomes]
rs72812886	0.83[ASN][1000 genomes]
rs72812889	0.86[ASN][1000 genomes]
rs7896854	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv831943	chr10:90664836-90865834	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv467416	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv551842	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
6	nsv895880	chr10:90816060-90874029	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
7	nsv831944	chr10:90822654-90967018	Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
8	nsv467418	chr10:90826252-90874468	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv551843	chr10:90826252-90874468	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	esv2829934	chr10:90826779-90874468	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv2758235	chr10:90835064-91017486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	esv2759775	chr10:90835064-91017486	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv895881	chr10:90842431-90940003	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2256329	LIPM	cis	parietal	SCAN

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90841800-90861000	Weak transcription	Aorta	Aorta
2	chr10:90842000-90851600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr10:90844200-90850400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr10:90845200-90850600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr10:90845200-90855000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr10:90845400-90850000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr10:90845400-90850600	Weak transcription	Brain Substantia Nigra	brain
8	chr10:90846800-90850600	Weak transcription	Brain Anterior Caudate	brain
9	chr10:90846800-90852800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr10:90847000-90849800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr10:90847000-90852400	Weak transcription	Placenta	Placenta
12	chr10:90847000-90852400	Weak transcription	K562	blood
13	chr10:90847200-90850400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr10:90847200-90850600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr10:90847400-90850000	Weak transcription	NHDF-Ad	bronchial
16	chr10:90847400-90850400	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr10:90847400-90850400	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr10:90847400-90850600	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr10:90847400-90850600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr10:90847400-90850600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:90847400-90850600	Weak transcription	Adipose Nuclei	Adipose
22	chr10:90847400-90850600	Weak transcription	Colon Smooth Muscle	Colon
23	chr10:90847400-90850600	Weak transcription	Fetal Lung	lung
24	chr10:90847400-90850600	Weak transcription	HSMM	muscle
25	chr10:90847400-90850600	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr10:90847400-90850600	Weak transcription	Osteobl	bone
27	chr10:90847400-90850800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr10:90847400-90851600	Weak transcription	Right Atrium	heart
29	chr10:90847400-90851800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr10:90847400-90852000	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr10:90847400-90853000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr10:90847400-90859200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr10:90847800-90850600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr10:90847800-90850600	Weak transcription	HSMMtube	muscle
35	chr10:90847800-90851600	Weak transcription	Psoas Muscle	Psoas
36	chr10:90847800-90851800	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr10:90848000-90851600	Weak transcription	Left Ventricle	heart
38	chr10:90848000-90851800	Enhancers	NHLF	lung
39	chr10:90848800-90849200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr10:90848800-90849400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr10:90848800-90850600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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