Variant report

Variant	rs16878655
Chromosome Location	chr4:26966277-26966278
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:26965180..26966816-chr4:26968853..26972336,3	K562	blood:
2	chr4:26947300..26949972-chr4:26965034..26967382,2	K562	blood:
3	chr4:26962657..26964232-chr4:26966255..26969155,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10939146	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12642922	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12646473	0.93[CEU][hapmap]
rs3792685	0.87[CEU][hapmap];0.90[GIH][hapmap];0.80[TSI][hapmap]
rs4557251	0.83[AFR][1000 genomes]
rs57686546	0.84[EUR][1000 genomes]
rs6448488	0.87[CEU][hapmap]
rs6835631	0.90[GIH][hapmap]
rs6844153	0.93[CEU][hapmap];0.86[GIH][hapmap];0.84[TSI][hapmap];0.81[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	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16878655	STIM2	Cis_1M	lymphoblastoid	RTeQTL
rs16878655	STIM2	cis	lymphoblastoid	seeQTL

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26923200-26977200	Weak transcription	Thymus	Thymus
2	chr4:26938600-26969000	Weak transcription	Gastric	stomach
3	chr4:26939200-26969000	Weak transcription	Pancreas	Pancrea
4	chr4:26950000-26980200	Weak transcription	Spleen	Spleen
5	chr4:26950200-26979400	Weak transcription	Ovary	ovary
6	chr4:26955600-26966400	Weak transcription	Primary hematopoietic stem cells	blood
7	chr4:26956000-26966400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr4:26957400-26966600	Weak transcription	Small Intestine	intestine
9	chr4:26959000-26966400	Weak transcription	Liver	Liver
10	chr4:26959200-26977600	Weak transcription	Fetal Thymus	thymus
11	chr4:26961000-26977200	Weak transcription	Fetal Intestine Small	intestine
12	chr4:26961600-26967000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr4:26961600-26967400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr4:26961600-26967600	Weak transcription	Dnd41	blood
15	chr4:26961600-26969600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr4:26961600-26973400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr4:26961600-26977200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr4:26961800-26966400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr4:26961800-26966400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:26961800-26966400	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr4:26961800-26966600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr4:26961800-26967200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr4:26961800-26967400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr4:26961800-26975800	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr4:26961800-26980200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr4:26961800-26994000	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr4:26962000-26975200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr4:26963200-26967400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr4:26963400-26966600	Weak transcription	Primary B cells from peripheral blood	blood
30	chr4:26963600-26975000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
31	chr4:26963600-26994200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr4:26963800-26967200	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr4:26964200-26977200	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr4:26964400-26975000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr4:26965200-26967000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr4:26965200-26967400	Enhancers	Primary T helper cells PMA-I stimulated	--
37	chr4:26965600-26966600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr4:26965600-26966600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr4:26965600-26966600	Enhancers	HSMM	muscle
40	chr4:26965600-26966600	Enhancers	NHDF-Ad	bronchial
41	chr4:26965600-26966600	Enhancers	Osteobl	bone
42	chr4:26965600-26966800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr4:26965600-26966800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr4:26965600-26966800	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr4:26965600-26966800	Enhancers	Muscle Satellite Cultured Cells	--
46	chr4:26965600-26966800	Enhancers	Brain Cingulate Gyrus	brain
47	chr4:26965600-26966800	Enhancers	Brain Inferior Temporal Lobe	brain
48	chr4:26965600-26966800	Enhancers	Stomach Mucosa	stomach
49	chr4:26965600-26966800	Enhancers	NH-A	brain
50	chr4:26965600-26967000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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