Variant report

Variant	rs9578104
Chromosome Location	chr13:30106037-30106038
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10454589	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10454590	1.00[ASW][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.80[MKK][hapmap];0.85[EUR][1000 genomes]
rs2482091	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2482093	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2490265	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2989593	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs34369885	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34496705	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3783260	0.86[TSI][hapmap]
rs478085	0.86[GIH][hapmap]
rs555913	1.00[CHD][hapmap]
rs6490409	0.86[TSI][hapmap]
rs71434731	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7328329	1.00[CHD][hapmap]
rs7329421	1.00[MEX][hapmap]
rs7993193	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9578103	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9578105	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9578106	0.85[EUR][1000 genomes]
rs9578107	0.85[EUR][1000 genomes]
rs9579383	1.00[CEU][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579384	1.00[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9579386	1.00[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579387	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579388	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579389	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579390	1.00[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579391	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9579392	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579393	1.00[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9579394	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9579395	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9579396	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9579398	1.00[CHD][hapmap];0.86[GIH][hapmap];0.85[EUR][1000 genomes]
rs9579400	1.00[CHD][hapmap]
rs9579401	1.00[CHD][hapmap]
rs9579410	1.00[CHD][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430551	chr13:30061100-30113000	Weak transcription Bivalent Enhancer Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30071000-30128800	Strong transcription	Dnd41	blood
2	chr13:30082000-30106600	Weak transcription	Fetal Kidney	kidney
3	chr13:30082000-30107600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr13:30082800-30111600	Weak transcription	Stomach Mucosa	stomach
5	chr13:30083200-30107200	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr13:30084200-30107800	Strong transcription	Esophagus	oesophagus
7	chr13:30084200-30110400	Strong transcription	Fetal Intestine Small	intestine
8	chr13:30084200-30110600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr13:30084200-30112600	Strong transcription	NHEK	skin
10	chr13:30084200-30115800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
11	chr13:30084400-30111200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr13:30084600-30112200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr13:30084800-30110400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr13:30084800-30110600	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr13:30084800-30111600	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr13:30085000-30111600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr13:30085600-30111200	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr13:30085600-30111600	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr13:30085800-30115400	Strong transcription	Primary T cells from cord blood	blood
20	chr13:30086000-30110600	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr13:30086000-30111200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr13:30087000-30110200	Strong transcription	GM12878-XiMat	blood
23	chr13:30089800-30110800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr13:30092200-30133000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr13:30092800-30106400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr13:30094000-30108000	Strong transcription	Cortex derived primary cultured neurospheres	brain
27	chr13:30095200-30112800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr13:30095400-30114800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr13:30095600-30110600	Strong transcription	Thymus	Thymus
30	chr13:30095800-30113200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr13:30096000-30110400	Strong transcription	NHLF	lung
32	chr13:30096000-30112600	Weak transcription	Psoas Muscle	Psoas
33	chr13:30096200-30107000	Strong transcription	Fetal Stomach	stomach
34	chr13:30096600-30106200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr13:30096600-30112200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr13:30096800-30111600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr13:30096800-30112200	Weak transcription	Liver	Liver
38	chr13:30097200-30138400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr13:30098000-30107000	Weak transcription	Adipose Nuclei	Adipose
40	chr13:30098000-30117200	Weak transcription	Small Intestine	intestine
41	chr13:30098400-30110800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr13:30098800-30129000	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr13:30099000-30114200	Weak transcription	Fetal Heart	heart
44	chr13:30100000-30107200	Strong transcription	Fetal Thymus	thymus
45	chr13:30100000-30110000	Strong transcription	NH-A	brain
46	chr13:30100200-30106800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr13:30100200-30110600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr13:30100200-30111200	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr13:30100400-30108800	Strong transcription	Duodenum Mucosa	Duodenum
50	chr13:30100400-30111400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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