Variant report

Variant	rs2055272
Chromosome Location	chr6:37289781-37289782
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37286882..37290245-chr6:37291782..37293649,3	K562	blood:
2	chr6:37282286..37284247-chr6:37288615..37291603,3	MCF-7	breast:
3	chr6:37288100..37290263-chr6:37321545..37323620,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112130	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10947665	0.80[EUR][1000 genomes]
rs10947668	0.81[EUR][1000 genomes]
rs166393	0.82[EUR][1000 genomes]
rs1874738	0.91[AMR][1000 genomes]
rs2295244	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[CHD][hapmap];0.90[MEX][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2622885	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs262925	0.81[LWK][hapmap]
rs3778015	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3818136	0.94[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711493	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4714053	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714055	0.94[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714057	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6914506	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924626	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739827	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7745567	0.80[AMR][1000 genomes]
rs9349037	0.81[AMR][1000 genomes]
rs9368993	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9380656	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9380660	0.91[CEU][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9462298	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2055272	TREM1	cis	parietal	SCAN
rs2055272	ITPR3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37277600-37298600	Weak transcription	Psoas Muscle	Psoas
2	chr6:37279200-37290000	Strong transcription	Liver	Liver
3	chr6:37279400-37291400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:37279400-37292400	Strong transcription	Primary T cells from cord blood	blood
5	chr6:37279600-37291000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:37279600-37291400	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr6:37279800-37290000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr6:37279800-37292400	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr6:37280000-37291200	Strong transcription	Fetal Muscle Leg	muscle
10	chr6:37280000-37291600	Strong transcription	Thymus	Thymus
11	chr6:37280000-37292800	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:37280000-37292800	Strong transcription	Dnd41	blood
13	chr6:37280200-37290000	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:37280200-37290600	Strong transcription	Adipose Nuclei	Adipose
15	chr6:37280200-37290800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:37280200-37291000	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:37280200-37291400	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr6:37280400-37290800	Strong transcription	Duodenum Mucosa	Duodenum
19	chr6:37280400-37290800	Strong transcription	Lung	lung
20	chr6:37280400-37290800	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr6:37280400-37290800	Strong transcription	Skeletal Muscle Male	skeletal muscle
22	chr6:37280400-37291000	Strong transcription	Fetal Stomach	stomach
23	chr6:37280600-37289800	Strong transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:37280600-37289800	Strong transcription	Sigmoid Colon	Sigmoid Colon
25	chr6:37280600-37290800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:37280600-37291000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:37280600-37291200	Strong transcription	Fetal Intestine Small	intestine
28	chr6:37280600-37291200	Strong transcription	Spleen	Spleen
29	chr6:37280600-37291400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:37280600-37291400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:37280600-37291600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:37280600-37292000	Strong transcription	H1 Cell Line	embryonic stem cell
33	chr6:37280800-37290600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:37280800-37290600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:37281400-37290200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr6:37281400-37290800	Strong transcription	Rectal Mucosa Donor 31	rectum
37	chr6:37282800-37293000	Strong transcription	Fetal Thymus	thymus
38	chr6:37283200-37289800	Strong transcription	Primary T helper cells PMA-I stimulated	--
39	chr6:37283400-37292200	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr6:37283800-37290600	Strong transcription	K562	blood
41	chr6:37284000-37291600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:37284400-37290600	Strong transcription	Fetal Muscle Trunk	muscle
43	chr6:37285000-37291200	Weak transcription	NHDF-Ad	bronchial
44	chr6:37285000-37298200	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr6:37285000-37298600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr6:37285200-37291800	Weak transcription	Stomach Mucosa	stomach
47	chr6:37285800-37291400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr6:37285800-37291400	Weak transcription	Right Atrium	heart
49	chr6:37286000-37289800	Enhancers	Fetal Heart	heart
50	chr6:37286000-37290600	Strong transcription	GM12878-XiMat	blood

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