Variant report

Variant	rs1256456
Chromosome Location	chr15:83511356-83511357
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	chr15:83508986..83511908-chr15:83514316..83517080,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HOMER2-1	chr15:83509838-83513971	NONHSAT047869

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1105867	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12385964	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1256425	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1256429	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1256451	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1256455	0.84[EUR][1000 genomes]
rs12905235	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12914161	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1553883	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2089844	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2379992	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2458017	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2667383	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2928572	0.90[EUR][1000 genomes]
rs41310978	0.81[EUR][1000 genomes]
rs4238539	0.83[EUR][1000 genomes]
rs4779063	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4779065	0.82[EUR][1000 genomes]
rs62011732	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8038679	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]

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	nsv469557	chr15:83417763-83560629	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
2	nsv482340	chr15:83417763-83560629	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv471687	chr15:83417764-83560629	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1256456	RPS17	Cis_1M	lymphoblastoid	RTeQTL
rs1256456	WHAMM	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83500400-83517600	Weak transcription	Fetal Heart	heart
2	chr15:83503600-83514400	Weak transcription	K562	blood
3	chr15:83503600-83518200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:83503600-83518600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr15:83503600-83518600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr15:83503800-83512000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:83504600-83549400	Weak transcription	Psoas Muscle	Psoas
8	chr15:83505000-83513600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr15:83505000-83518200	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr15:83505600-83512000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:83505800-83520800	Weak transcription	Dnd41	blood
12	chr15:83505800-83522400	Weak transcription	Fetal Kidney	kidney
13	chr15:83506000-83514600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr15:83506000-83518400	Weak transcription	NH-A	brain
15	chr15:83506000-83524200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:83506200-83512400	Weak transcription	GM12878-XiMat	blood
17	chr15:83506200-83512600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr15:83506200-83512800	Weak transcription	NHEK	skin
19	chr15:83506200-83513600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:83506200-83513800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr15:83506200-83518400	Weak transcription	NHDF-Ad	bronchial
22	chr15:83506200-83518800	Weak transcription	Brain Angular Gyrus	brain
23	chr15:83506200-83527400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:83506200-83543800	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr15:83506400-83511400	Weak transcription	HMEC	breast
26	chr15:83506400-83518200	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr15:83506400-83518600	Weak transcription	Ovary	ovary
28	chr15:83506400-83518800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr15:83506600-83512600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:83506600-83512600	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr15:83506600-83513600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr15:83506600-83518200	Weak transcription	Right Ventricle	heart
33	chr15:83506800-83513400	Weak transcription	Fetal Thymus	thymus
34	chr15:83506800-83518200	Weak transcription	A549	lung
35	chr15:83507000-83512000	Weak transcription	Primary B cells from peripheral blood	blood
36	chr15:83507000-83513400	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr15:83507000-83514600	Weak transcription	Placenta	Placenta
38	chr15:83507000-83515200	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr15:83507000-83517000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr15:83507000-83518000	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr15:83507000-83518200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr15:83507000-83518200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr15:83507000-83518600	Weak transcription	Spleen	Spleen
44	chr15:83507200-83512600	Weak transcription	Primary monocytes fromperipheralblood	blood
45	chr15:83507200-83512600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr15:83507200-83512800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr15:83507200-83512800	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:83507200-83518000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr15:83507200-83518200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr15:83507200-83518200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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