Variant report

Variant	rs3904627
Chromosome Location	chr10:27750175-27750176
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	chr10:27746362..27748176-chr10:27749156..27752077,2	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10508725	0.81[ASN][1000 genomes]
rs11015783	1.00[ASN][1000 genomes]
rs11814433	0.91[ASN][1000 genomes]
rs12413104	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12414736	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12415979	0.91[ASN][1000 genomes]
rs12772577	0.91[ASN][1000 genomes]
rs12777582	0.91[ASN][1000 genomes]
rs17681969	1.00[ASN][1000 genomes]
rs17749271	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17749397	0.91[ASN][1000 genomes]
rs2020155	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2368231	0.91[ASN][1000 genomes]
rs2642274	0.91[ASN][1000 genomes]
rs2992007	0.91[ASN][1000 genomes]
rs34354872	1.00[ASN][1000 genomes]
rs34467586	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34773871	1.00[ASN][1000 genomes]
rs34791112	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34978206	0.91[ASN][1000 genomes]
rs35224308	0.91[ASN][1000 genomes]
rs35590474	0.91[ASN][1000 genomes]
rs35599449	0.91[ASN][1000 genomes]
rs35673366	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3847381	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4749249	0.91[ASN][1000 genomes]
rs56108042	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs594549	0.91[ASN][1000 genomes]
rs616550	0.83[ASN][1000 genomes]
rs620664	0.83[ASN][1000 genomes]
rs625433	0.91[ASN][1000 genomes]
rs638324	0.83[ASN][1000 genomes]
rs661882	0.91[ASN][1000 genomes]
rs67199203	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68016309	1.00[ASN][1000 genomes]
rs7067807	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7069133	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090220	0.91[ASN][1000 genomes]
rs7095624	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs717287	0.91[ASN][1000 genomes]
rs765700	1.00[ASN][1000 genomes]
rs9732977	0.91[ASN][1000 genomes]
rs9804355	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8614	chr10:27504487-27828406	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1045257	chr10:27572440-27926946	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv1053952	chr10:27659365-27915029	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	esv2750890	chr10:27669479-27774501	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3904627	PTCHD3	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27742600-27752600	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr10:27747600-27752200	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr10:27747600-27752200	Weak transcription	Fetal Thymus	thymus
4	chr10:27747600-27753000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr10:27747600-27753400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr10:27747600-27753400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:27747800-27752200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr10:27748000-27751800	Weak transcription	Primary T cells from cord blood	blood
9	chr10:27748400-27753200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr10:27749400-27752800	Weak transcription	Primary B cells from cord blood	blood
11	chr10:27749800-27751400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr10:27749800-27752600	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr10:27750000-27750400	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr10:27750000-27752200	Weak transcription	Primary monocytes fromperipheralblood	blood

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