Variant report

Variant	rs11185817
Chromosome Location	chr10:91385022-91385023
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:91382704..91385551-chr10:91404108..91405622,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232936	Chromatin interaction
ENSG00000249962	Chromatin interaction
ENSG00000152782	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10748522	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs10785889	0.86[ASN][1000 genomes]
rs10881606	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];0.92[TSI][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185766	0.89[ASN][1000 genomes]
rs11185785	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185803	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185807	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185813	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185814	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185815	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11592441	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409354	1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs2038921	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs2296616	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs34369661	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4313481	1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs6586203	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6586205	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7076277	0.89[ASN][1000 genomes]
rs7077162	0.89[ASN][1000 genomes]
rs7077189	0.89[ASN][1000 genomes]
rs7089984	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs728056	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs7893156	0.89[ASN][1000 genomes]
rs7896079	0.94[YRI][hapmap]
rs7900297	0.89[ASN][1000 genomes]
rs7903124	0.89[ASN][1000 genomes]
rs7905082	0.89[ASN][1000 genomes]
rs7907626	0.89[ASN][1000 genomes]
rs7918120	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11185817	PCGF5	cis	cerebellum	SCAN

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91345000-91392800	Weak transcription	Hela-S3	cervix
2	chr10:91351600-91403400	Weak transcription	Esophagus	oesophagus
3	chr10:91352600-91403400	Weak transcription	Small Intestine	intestine
4	chr10:91353800-91403800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:91359400-91393000	Weak transcription	NHEK	skin
6	chr10:91359800-91403200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:91370200-91385800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr10:91370200-91403200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr10:91371000-91392800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:91371400-91389400	Weak transcription	A549	lung
11	chr10:91371800-91389400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:91371800-91393600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:91371800-91401600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr10:91371800-91403200	Weak transcription	HSMMtube	muscle
15	chr10:91372000-91393400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr10:91376000-91394200	Weak transcription	Primary T cells from cord blood	blood
17	chr10:91380600-91403200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr10:91381400-91385600	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr10:91381600-91385400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr10:91381600-91390600	Weak transcription	Fetal Stomach	stomach
21	chr10:91381800-91392000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr10:91382000-91386600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr10:91383200-91389800	Enhancers	Fetal Heart	heart
24	chr10:91383400-91385200	Strong transcription	Fetal Intestine Small	intestine
25	chr10:91383400-91385400	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr10:91383800-91385800	Weak transcription	Right Atrium	heart
27	chr10:91383800-91392800	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr10:91383800-91392800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr10:91383800-91393400	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr10:91383800-91402600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr10:91384000-91385200	Weak transcription	Right Ventricle	heart
32	chr10:91384000-91385600	Weak transcription	GM12878-XiMat	blood
33	chr10:91384000-91386400	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr10:91384000-91394600	Weak transcription	Dnd41	blood
35	chr10:91384400-91385400	Enhancers	Liver	Liver
36	chr10:91384400-91385600	Enhancers	Fetal Muscle Leg	muscle
37	chr10:91384400-91393600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr10:91384600-91385400	Enhancers	HSMM	muscle
39	chr10:91384600-91386000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr10:91384600-91386000	Enhancers	Fetal Kidney	kidney
41	chr10:91384600-91386000	Enhancers	Ovary	ovary
42	chr10:91384600-91386000	Enhancers	NH-A	brain
43	chr10:91384600-91386000	Enhancers	Osteobl	bone
44	chr10:91384800-91385400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr10:91384800-91386000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr10:91384800-91386200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr10:91384800-91392600	Weak transcription	Psoas Muscle	Psoas
48	chr10:91385000-91385400	Enhancers	HepG2	liver
49	chr10:91385000-91385600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr10:91385000-91385800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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