Variant report

Variant	rs4670688
Chromosome Location	chr2:37541060-37541061
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:37540781..37542934-chr2:37546496..37548956,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10177176	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs10190959	0.91[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs1056021	0.82[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs11124569	0.80[JPT][hapmap]
rs11124574	0.82[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs11124576	0.83[CEU][hapmap]
rs11124578	0.93[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1158218	0.87[CHB][hapmap];0.93[CHD][hapmap];0.89[ASN][1000 genomes]
rs1158219	0.91[CHB][hapmap];0.98[CHD][hapmap];0.89[ASN][1000 genomes]
rs11682607	0.85[ASN][1000 genomes]
rs11689794	0.89[ASN][1000 genomes]
rs12616151	0.88[ASN][1000 genomes]
rs12618410	0.91[CHB][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs12712532	0.87[ASN][1000 genomes]
rs13015451	0.88[ASN][1000 genomes]
rs13030789	0.83[ASN][1000 genomes]
rs13420463	0.88[ASN][1000 genomes]
rs1477055	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs17020490	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1989172	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs2041836	0.89[JPT][hapmap]
rs2268987	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2300881	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.99[ASN][1000 genomes]
rs2300884	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2372993	0.83[ASN][1000 genomes]
rs2888434	0.86[JPT][hapmap]
rs3770757	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3770759	0.82[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs4581878	0.87[ASN][1000 genomes]
rs4670194	0.82[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4670195	0.91[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.83[MEX][hapmap];0.92[ASN][1000 genomes]
rs4670689	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4998429	0.90[JPT][hapmap]
rs56774710	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs57361399	0.96[ASN][1000 genomes]
rs6544066	0.95[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs67467920	0.91[ASN][1000 genomes]
rs71398224	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs72792829	0.85[ASN][1000 genomes]
rs74177070	0.89[ASN][1000 genomes]
rs7568510	0.87[ASN][1000 genomes]
rs7570547	0.89[ASN][1000 genomes]
rs7584565	0.87[ASN][1000 genomes]
rs9309004	0.86[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs4670688	ATL2	cis	cerebellum	SCAN
rs4670688	CEBPZ	cis	lymphoblastoid	seeQTL
rs4670688	QPCT	cis	parietal	SCAN
rs4670688	QPCT	cis	lymphoblastoid	seeQTL
rs4670688	EIF2AK2	cis	parietal	SCAN
rs4670688	CEBPZ	cis	Esophagus Mucosa	GTEx

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37484600-37550400	Weak transcription	Right Ventricle	heart
2	chr2:37502800-37543400	Weak transcription	Esophagus	oesophagus
3	chr2:37509000-37550800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr2:37511000-37550800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr2:37513600-37543200	Weak transcription	NHLF	lung
6	chr2:37515800-37545400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr2:37516800-37545200	Weak transcription	Fetal Kidney	kidney
8	chr2:37517400-37542400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr2:37518800-37545400	Weak transcription	NH-A	brain
10	chr2:37519000-37549400	Weak transcription	HSMM	muscle
11	chr2:37519200-37543800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr2:37519200-37545600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr2:37520200-37543400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr2:37520200-37545400	Weak transcription	Ovary	ovary
15	chr2:37520200-37549600	Weak transcription	Fetal Muscle Leg	muscle
16	chr2:37520400-37549600	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr2:37520400-37550400	Weak transcription	Fetal Muscle Trunk	muscle
18	chr2:37529400-37545600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr2:37529600-37545600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr2:37529600-37545600	Weak transcription	NHDF-Ad	bronchial
21	chr2:37530400-37542600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr2:37530400-37548400	Weak transcription	K562	blood
23	chr2:37530600-37542400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr2:37530600-37542800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr2:37530600-37548200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr2:37530600-37550400	Weak transcription	Thymus	Thymus
27	chr2:37530800-37542400	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr2:37530800-37542400	Weak transcription	Dnd41	blood
29	chr2:37530800-37542600	Weak transcription	Gastric	stomach
30	chr2:37530800-37542800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr2:37530800-37542800	Weak transcription	Fetal Stomach	stomach
32	chr2:37530800-37548600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr2:37530800-37549600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr2:37531000-37543200	Weak transcription	Fetal Thymus	thymus
35	chr2:37531000-37548600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr2:37531600-37543400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr2:37533200-37550400	Weak transcription	Fetal Intestine Large	intestine
38	chr2:37533400-37544800	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr2:37533800-37546000	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr2:37533800-37549400	Weak transcription	Fetal Intestine Small	intestine
41	chr2:37534000-37550400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr2:37534400-37550400	Weak transcription	Lung	lung
43	chr2:37534400-37550600	Weak transcription	Left Ventricle	heart
44	chr2:37534600-37548400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr2:37534800-37543200	Weak transcription	HepG2	liver
46	chr2:37534800-37548400	Weak transcription	A549	lung
47	chr2:37534800-37548800	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr2:37535000-37544800	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr2:37535000-37548400	Weak transcription	Duodenum Mucosa	Duodenum
50	chr2:37535000-37548600	Weak transcription	HUVEC	blood vessel

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