Variant report

Variant	rs55841347
Chromosome Location	chr1:160584092-160584093
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:160582022..160584831-chr1:160612719..160614744,2	K562	blood:
2	chr1:160583254..160585233-chr1:160585992..160588888,2	K562	blood:
3	chr1:160582996..160585216-chr1:160596637..160598593,2	K562	blood:
4	chr1:160577461..160579543-chr1:160581700..160584306,2	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11265452	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12733256	0.81[ASN][1000 genomes]
rs1394078	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs151607	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs164283	0.81[ASN][1000 genomes]
rs16832283	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17385878	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1809963	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2753260	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56168064	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56367214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61801562	0.84[EUR][1000 genomes]
rs61801564	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61801565	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61801567	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61802608	0.83[EUR][1000 genomes]
rs6662093	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67197441	0.83[EUR][1000 genomes]
rs72708832	0.83[EUR][1000 genomes]
rs7550771	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs912582	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829614	chr1:160465291-160595000	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv831703	chr1:160496124-160643024	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv1822379	chr1:160545332-160831143	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv831714	chr1:160581168-160776809	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55841347	CD84	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160576200-160591400	Weak transcription	Spleen	Spleen
2	chr1:160576400-160584800	Genic enhancers	Fetal Thymus	thymus
3	chr1:160576800-160591400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr1:160577000-160584200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr1:160577000-160590800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr1:160577200-160584400	Genic enhancers	Thymus	Thymus
7	chr1:160577400-160584200	Strong transcription	Primary T cells from cord blood	blood
8	chr1:160577600-160584400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr1:160578000-160587400	Strong transcription	Primary B cells from peripheral blood	blood
10	chr1:160579000-160589400	Strong transcription	GM12878-XiMat	blood
11	chr1:160579800-160593200	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr1:160580800-160584200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr1:160582200-160591800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
14	chr1:160582800-160584200	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr1:160582800-160584200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr1:160583200-160584200	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr1:160583200-160585200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr1:160583200-160585400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr1:160583400-160585400	Weak transcription	Primary B cells from cord blood	blood
20	chr1:160583600-160584800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr1:160583800-160584200	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr1:160584000-160584200	Genic enhancers	Primary T cells fromperipheralblood	blood
23	chr1:160584000-160584400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr1:160584000-160585200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

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