Variant report

Variant	rs1542153
Chromosome Location	chr10:49647558-49647559
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:49647174..49649169-chr10:49659703..49661995,2	MCF-7	breast:
2	chr10:49646827..49648798-chr10:49677849..49680976,3	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10735224	1.00[AMR][1000 genomes]
rs10735225	1.00[AMR][1000 genomes]
rs10776599	1.00[AMR][1000 genomes]
rs10857567	1.00[CEU][hapmap]
rs1550774	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs1623017	1.00[CEU][hapmap]
rs1881739	1.00[YRI][hapmap]
rs1919705	0.93[YRI][hapmap]
rs1978998	1.00[YRI][hapmap]
rs2590379	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs2590380	1.00[EUR][1000 genomes]
rs2590387	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2590388	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2590390	0.93[YRI][hapmap]
rs2698760	1.00[YRI][hapmap]
rs2698765	1.00[EUR][1000 genomes]
rs2698769	1.00[YRI][hapmap]
rs3730154	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs41301111	1.00[EUR][1000 genomes]
rs4141840	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs59377405	1.00[EUR][1000 genomes]
rs60467447	1.00[EUR][1000 genomes]
rs61343950	1.00[EUR][1000 genomes]
rs7072065	1.00[EUR][1000 genomes]
rs7073628	1.00[EUR][1000 genomes]
rs7085678	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7098618	1.00[CEU][hapmap]
rs73293121	1.00[EUR][1000 genomes]
rs73293181	1.00[EUR][1000 genomes]
rs73293198	1.00[EUR][1000 genomes]
rs73298383	1.00[EUR][1000 genomes]
rs73300395	1.00[EUR][1000 genomes]
rs74130210	0.83[EUR][1000 genomes]
rs74130216	1.00[EUR][1000 genomes]
rs7894863	1.00[AMR][1000 genomes]
rs7901179	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1039508	chr10:49595718-49654403	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv519701	chr10:49636507-49651349	Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49607600-49647800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:49607600-49652400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:49612000-49664200	Weak transcription	Thymus	Thymus
4	chr10:49612800-49660200	Weak transcription	Aorta	Aorta
5	chr10:49619000-49664200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr10:49620800-49647600	Weak transcription	Colonic Mucosa	Colon
7	chr10:49620800-49652400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr10:49620800-49658600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr10:49621200-49647800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:49621200-49657400	Weak transcription	Brain Hippocampus Middle	brain
11	chr10:49621400-49647600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr10:49621400-49650800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr10:49621400-49652200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr10:49621400-49658600	Weak transcription	Brain Substantia Nigra	brain
15	chr10:49621400-49664400	Weak transcription	Brain Angular Gyrus	brain
16	chr10:49621600-49647800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr10:49621600-49652200	Weak transcription	Fetal Heart	heart
18	chr10:49624600-49664800	Weak transcription	Gastric	stomach
19	chr10:49625800-49648600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr10:49625800-49654400	Weak transcription	A549	lung
21	chr10:49626200-49647600	Weak transcription	GM12878-XiMat	blood
22	chr10:49626600-49648800	Weak transcription	Lung	lung
23	chr10:49626600-49664400	Weak transcription	Spleen	Spleen
24	chr10:49630400-49652400	Weak transcription	Pancreas	Pancrea
25	chr10:49632800-49647800	Weak transcription	Psoas Muscle	Psoas
26	chr10:49635200-49652200	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr10:49635400-49652800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr10:49639000-49653000	Weak transcription	Fetal Stomach	stomach
29	chr10:49639400-49652600	Weak transcription	Fetal Muscle Leg	muscle
30	chr10:49639600-49652400	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr10:49639600-49657800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr10:49640000-49652200	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr10:49640000-49652600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr10:49640400-49652200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr10:49641200-49647800	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr10:49641400-49652000	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr10:49642000-49648600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr10:49644000-49652600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr10:49644200-49649600	Weak transcription	Primary hematopoietic stem cells	blood
40	chr10:49644200-49651800	Weak transcription	Rectal Smooth Muscle	rectum
41	chr10:49644200-49652800	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr10:49644200-49653000	Weak transcription	Brain Germinal Matrix	brain
43	chr10:49644200-49655000	Weak transcription	Brain Cingulate Gyrus	brain
44	chr10:49644200-49664400	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr10:49644400-49647600	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr10:49644600-49649200	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr10:49644600-49650000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr10:49644600-49656600	Weak transcription	HUVEC	blood vessel
49	chr10:49644600-49660400	Weak transcription	Brain Anterior Caudate	brain
50	chr10:49644800-49654800	Weak transcription	Stomach Smooth Muscle	stomach

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