Variant report

Variant	rs17105672
Chromosome Location	chr14:77756321-77756322
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:77746501..77748869-chr14:77754519..77757381,3	MCF-7	breast:
2	chr14:77644659..77647131-chr14:77754541..77756569,2	MCF-7	breast:
3	chr14:77749701..77751347-chr14:77755395..77757544,2	K562	blood:

Variant related genes	Relation type
ENSG00000009830	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10138030	0.85[CHD][hapmap]
rs11547793	0.82[CHD][hapmap]
rs11624564	0.86[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs11624859	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11626281	0.98[ASN][1000 genomes]
rs11627257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12431465	0.90[ASN][1000 genomes]
rs2042045	0.91[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.87[JPT][hapmap];0.82[MEX][hapmap];0.94[ASN][1000 genomes]
rs2098380	0.82[CHB][hapmap]
rs2111699	0.95[CHB][hapmap];0.83[CHD][hapmap];0.83[ASN][1000 genomes]
rs2193594	0.86[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2216089	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs2270421	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.90[LWK][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2270423	0.86[CHB][hapmap]
rs2287387	0.95[CHB][hapmap];0.87[CHD][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs2287388	0.85[CHD][hapmap]
rs2287392	0.84[CHD][hapmap]
rs2287395	0.90[CHB][hapmap]
rs2363641	1.00[CHB][hapmap];0.91[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs2363642	0.94[ASN][1000 genomes]
rs2363643	0.95[CHB][hapmap];0.86[CHD][hapmap];0.82[ASN][1000 genomes]
rs2885854	0.88[ASN][1000 genomes]
rs3759733	0.83[CHD][hapmap]
rs3783986	0.89[CHD][hapmap];0.95[JPT][hapmap]
rs3815626	1.00[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs4147578	0.94[CHB][hapmap];0.86[AFR][1000 genomes]
rs4899650	0.95[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs4903567	0.95[CHB][hapmap];0.87[CHD][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs4903568	0.89[ASN][1000 genomes]
rs4903569	0.81[ASN][1000 genomes]
rs59630055	0.94[ASN][1000 genomes]
rs61990299	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6574367	1.00[CHB][hapmap];0.91[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs6574368	0.88[ASN][1000 genomes]
rs67873774	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7142812	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.94[ASN][1000 genomes]
rs7158951	0.86[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs7159558	0.85[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap]
rs7160188	0.94[ASN][1000 genomes]
rs7160195	0.88[ASN][1000 genomes]
rs8007615	0.88[ASN][1000 genomes]
rs8008449	0.94[ASN][1000 genomes]
rs8009261	0.86[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs8009733	0.86[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs8016187	0.81[CEU][hapmap];0.91[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431017	chr14:76938089-77854647	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	107 gene(s)	inside rSNPs	diseases
2	nsv902104	chr14:77720741-77756321	Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs17105672	GSTZ1	Cis_1M	lymphoblastoid	RTeQTL
rs17105672	GSTZ1	cis	Esophagus Mucosa	GTEx
rs17105672	C14orf45	cis	parietal	SCAN
rs17105672	GSTZ1	cis	lymphoblastoid	seeQTL
rs17105672	SNW1	cis	cerebellum	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:77739600-77775600	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr14:77740200-77766800	Strong transcription	Cortex derived primary cultured neurospheres	brain
3	chr14:77740200-77769800	Weak transcription	Small Intestine	intestine
4	chr14:77740400-77766000	Weak transcription	Stomach Mucosa	stomach
5	chr14:77740800-77758000	Strong transcription	Fetal Stomach	stomach
6	chr14:77740800-77766200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr14:77741000-77767400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr14:77741800-77757200	Strong transcription	Liver	Liver
9	chr14:77741800-77758600	Strong transcription	Fetal Muscle Trunk	muscle
10	chr14:77741800-77773600	Weak transcription	GM12878-XiMat	blood
11	chr14:77742000-77756800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr14:77742000-77757400	Weak transcription	Right Atrium	heart
13	chr14:77742000-77766600	Strong transcription	Placenta	Placenta
14	chr14:77742200-77757600	Strong transcription	Ovary	ovary
15	chr14:77742200-77767600	Strong transcription	Stomach Smooth Muscle	stomach
16	chr14:77742400-77766400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr14:77742400-77766400	Strong transcription	Adipose Nuclei	Adipose
18	chr14:77742400-77780200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr14:77742600-77756600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr14:77742600-77757400	Strong transcription	Brain Substantia Nigra	brain
21	chr14:77742600-77759400	Strong transcription	Brain Anterior Caudate	brain
22	chr14:77742600-77759600	Strong transcription	Brain Inferior Temporal Lobe	brain
23	chr14:77742600-77766600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr14:77742800-77757200	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr14:77743200-77760400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr14:77743400-77757600	Strong transcription	Left Ventricle	heart
27	chr14:77744000-77771400	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr14:77744400-77760200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr14:77746600-77767200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr14:77746800-77762200	Weak transcription	Colonic Mucosa	Colon
31	chr14:77747200-77762000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr14:77747600-77756800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr14:77748200-77757400	Strong transcription	Sigmoid Colon	Sigmoid Colon
34	chr14:77748400-77759200	Strong transcription	Duodenum Smooth Muscle	Duodenum
35	chr14:77749200-77766400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr14:77749400-77757400	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr14:77749400-77763000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr14:77749800-77757800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr14:77750000-77762000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr14:77750200-77767400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr14:77750800-77768000	Weak transcription	K562	blood
42	chr14:77751200-77756800	Weak transcription	Fetal Intestine Small	intestine
43	chr14:77751200-77756800	Weak transcription	Gastric	stomach
44	chr14:77751200-77764600	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr14:77751400-77762600	Weak transcription	Hela-S3	cervix
46	chr14:77751400-77769200	Weak transcription	NHLF	lung
47	chr14:77751400-77769800	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr14:77751400-77775600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr14:77751400-77786200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr14:77751800-77762200	Weak transcription	H9 Cell Line	embryonic stem cell

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