Variant report

Variant	rs1878076
Chromosome Location	chr1:165617320-165617321
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:165615940..165619715-chr1:165622033..165624216,3	K562	blood:
2	chr1:165613866..165617736-chr1:165618258..165621387,4	K562	blood:
3	chr1:165615337..165617742-chr1:165665628..165667715,2	K562	blood:
4	chr1:165615419..165617787-chr1:165619065..165622099,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143198	Chromatin interaction
ENSG00000143149	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10737516	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10800118	0.94[CHB][hapmap]
rs2018265	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4147592	0.89[CHB][hapmap]
rs4147594	0.89[CHB][hapmap]
rs4147596	0.89[CHB][hapmap]
rs4147599	0.84[ASN][1000 genomes]
rs9333413	0.93[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];0.93[GIH][hapmap];0.92[JPT][hapmap];0.87[MEX][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs1878076	PVRL4	cis	parietal	SCAN
rs1878076	NIT1	cis	parietal	SCAN
rs1878076	MGST3	cis	multi-tissue	Pritchard
rs1878076	MGST3	cis	Lymphoblastoid	GTEx
rs1878076	OLFML2B	cis	parietal	SCAN
rs1878076	SLAMF1	cis	parietal	SCAN
rs1878076	MGST3	cis	cerebellum	SCAN
rs1878076	MGST3	Cis_1M	lymphoblastoid	RTeQTL
rs1878076	MGST3	cis	lymphoblastoid	seeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165602000-165622800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr1:165602200-165624200	Weak transcription	Dnd41	blood
3	chr1:165603000-165619800	Weak transcription	HSMMtube	muscle
4	chr1:165603600-165617400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr1:165603800-165624200	Weak transcription	Brain Germinal Matrix	brain
6	chr1:165603800-165631200	Weak transcription	Fetal Kidney	kidney
7	chr1:165604400-165628000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr1:165604600-165620000	Weak transcription	Fetal Brain Female	brain
9	chr1:165604800-165623000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr1:165604800-165628400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr1:165604800-165632200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr1:165605000-165620200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr1:165605200-165620000	Weak transcription	Primary T cells from cord blood	blood
14	chr1:165605200-165628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr1:165605400-165620200	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr1:165605600-165618000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr1:165605600-165622600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr1:165606200-165659600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:165606400-165619600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr1:165606800-165622800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr1:165607200-165618000	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr1:165607200-165619200	Weak transcription	NH-A	brain
23	chr1:165607200-165620000	Weak transcription	Fetal Brain Male	brain
24	chr1:165607200-165623000	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr1:165607400-165620000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr1:165607400-165620200	Weak transcription	NHLF	lung
27	chr1:165608600-165618200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr1:165609400-165619000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr1:165609600-165619000	Weak transcription	Fetal Muscle Trunk	muscle
30	chr1:165609800-165620000	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr1:165610600-165619000	Weak transcription	Placenta	Placenta
32	chr1:165610600-165630800	Weak transcription	Small Intestine	intestine
33	chr1:165611200-165619000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr1:165611400-165622400	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr1:165611600-165619000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr1:165611600-165619200	Weak transcription	Osteobl	bone
37	chr1:165611800-165617400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr1:165612000-165622200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr1:165612200-165619000	Weak transcription	Aorta	Aorta
40	chr1:165613400-165617600	Enhancers	Stomach Mucosa	stomach
41	chr1:165613800-165621800	Weak transcription	Brain Angular Gyrus	brain
42	chr1:165614000-165619400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr1:165614200-165617400	Enhancers	Fetal Intestine Large	intestine
44	chr1:165614800-165617800	Enhancers	Ovary	ovary
45	chr1:165614800-165618400	Enhancers	Right Ventricle	heart
46	chr1:165615000-165619200	Weak transcription	HSMM	muscle
47	chr1:165615200-165617600	Enhancers	Esophagus	oesophagus
48	chr1:165615200-165618000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr1:165615200-165618600	Enhancers	Colon Smooth Muscle	Colon
50	chr1:165615200-165628400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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