Variant report

Variant	rs10518904
Chromosome Location	chr15:57530475-57530476
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	chr15:57511815..57513845-chr15:57528916..57531041,2	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1045665	1.00[ASW][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518898	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12437713	0.95[YRI][hapmap]
rs12900589	0.94[YRI][hapmap]
rs12900874	0.89[YRI][hapmap]
rs16953323	0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977217	0.89[YRI][hapmap]
rs16977218	0.89[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977232	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977235	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977242	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977244	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977245	0.89[YRI][hapmap];1.00[EUR][1000 genomes]
rs16977253	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977272	1.00[MEX][hapmap];0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977276	1.00[MEX][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977280	0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977284	0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977297	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977308	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977312	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977315	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977329	1.00[EUR][1000 genomes]
rs16977330	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977333	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977341	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977352	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977353	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977354	0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977372	0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17415738	1.00[MEX][hapmap];0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1867639	1.00[EUR][1000 genomes]
rs2169466	0.95[YRI][hapmap]
rs2593220	1.00[EUR][1000 genomes]
rs2615251	1.00[EUR][1000 genomes]
rs2733316	1.00[EUR][1000 genomes]
rs2733317	0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs2733343	1.00[EUR][1000 genomes]
rs2733345	1.00[EUR][1000 genomes]
rs28454221	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34560099	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs935327	1.00[EUR][1000 genomes]
rs935329	0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[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	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv457164	chr15:57495060-57559387	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv569578	chr15:57495060-57559387	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10518904	FABP4	trans	brain	seeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57511800-57551600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:57511800-57565000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr15:57519600-57544600	Weak transcription	Psoas Muscle	Psoas
4	chr15:57520400-57576000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr15:57520800-57544600	Weak transcription	Colon Smooth Muscle	Colon
6	chr15:57521000-57538000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr15:57521400-57536800	Weak transcription	Small Intestine	intestine
8	chr15:57522200-57536200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr15:57522400-57565400	Weak transcription	Spleen	Spleen
10	chr15:57522800-57585000	Strong transcription	Fetal Thymus	thymus
11	chr15:57523800-57532800	Strong transcription	Dnd41	blood
12	chr15:57524400-57535600	Strong transcription	HSMM	muscle
13	chr15:57524400-57540600	Strong transcription	Primary T cells from cord blood	blood
14	chr15:57524600-57531200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr15:57525600-57556800	Weak transcription	Pancreas	Pancrea
16	chr15:57526000-57531400	Weak transcription	Fetal Intestine Small	intestine
17	chr15:57526000-57537400	Weak transcription	Esophagus	oesophagus
18	chr15:57526000-57539000	Weak transcription	Gastric	stomach
19	chr15:57526000-57539200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:57526000-57539200	Weak transcription	Lung	lung
21	chr15:57526000-57542600	Weak transcription	Right Ventricle	heart
22	chr15:57526000-57550200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr15:57526400-57536000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:57526400-57537200	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr15:57526400-57539200	Weak transcription	Aorta	Aorta
26	chr15:57526600-57537200	Weak transcription	Colonic Mucosa	Colon
27	chr15:57526600-57539000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr15:57526600-57545400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr15:57526600-57554400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr15:57526600-57574200	Weak transcription	Hela-S3	cervix
31	chr15:57526800-57537200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr15:57526800-57545400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr15:57526800-57554200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr15:57527200-57531000	Enhancers	Cortex derived primary cultured neurospheres	brain
35	chr15:57527200-57531400	Enhancers	Fetal Lung	lung
36	chr15:57527200-57537400	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr15:57527200-57538200	Weak transcription	Stomach Smooth Muscle	stomach
38	chr15:57527400-57530800	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr15:57527400-57537600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr15:57527600-57530800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
41	chr15:57527600-57532200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:57527600-57536000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:57527800-57532200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr15:57528200-57535600	Weak transcription	Primary B cells from peripheral blood	blood
45	chr15:57528200-57535600	Weak transcription	Osteobl	bone
46	chr15:57528200-57537200	Weak transcription	HepG2	liver
47	chr15:57528200-57537200	Weak transcription	K562	blood
48	chr15:57528200-57537400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr15:57528200-57537400	Weak transcription	HSMMtube	muscle
50	chr15:57528200-57545200	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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