Variant report

Variant	rs10857662
Chromosome Location	chr10:50152302-50152303
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr10:50152207-50152439	SK-N-SH_RA	brain:	n/a	n/a
2	GATA2	chr10:50152061-50152558	SH-SY5Y	brain:	n/a	n/a
3	EP300	chr10:50151828-50152829	SK-N-SH	brain:	n/a	n/a
4	GATA3	chr10:50152136-50152606	SH-SY5Y	brain:	n/a	n/a
5	REST	chr10:50152202-50152426	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:50141718..50143787-chr10:50150153..50152612,2	MCF-7	breast:

Variant related genes	Relation type
WDFY4	TF binding region
ENSG00000165383	Chromatin interaction
ENSG00000241577	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1015717	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10735228	0.88[CEU][hapmap]
rs10745290	0.96[CEU][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs10776658	0.88[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10776659	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10776660	0.88[CEU][hapmap];0.94[CHB][hapmap];0.83[EUR][1000 genomes]
rs10857430	0.96[CEU][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs10857661	0.88[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11101572	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11101573	0.96[CEU][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes]
rs12413832	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1877799	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs1877800	0.88[CEU][hapmap]
rs1913516	0.96[CEU][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs2137909	0.96[CEU][hapmap];0.92[JPT][hapmap];0.86[EUR][1000 genomes]
rs2137913	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2249662	0.85[CEU][hapmap];0.92[JPT][hapmap]
rs2255553	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2271565	0.96[CEU][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs2292584	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs2292585	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs2457466	0.81[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2663028	0.89[CEU][hapmap];0.94[CHB][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2663067	0.84[CEU][hapmap];0.94[CHB][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2663068	0.88[CHB][hapmap]
rs2671715	0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2889709	0.87[CEU][hapmap];0.82[CHB][hapmap];0.82[EUR][1000 genomes]
rs3750867	0.95[EUR][1000 genomes]
rs3829206	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4317902	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4614357	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4838433	0.80[CEU][hapmap]
rs4838663	0.86[EUR][1000 genomes]
rs61848117	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6537586	0.88[CEU][hapmap];0.94[CHB][hapmap];0.83[EUR][1000 genomes]
rs6537587	0.96[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs7072344	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs7082322	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7083751	0.89[CEU][hapmap];0.94[CHB][hapmap];0.83[EUR][1000 genomes]
rs7086917	0.96[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs7091429	0.88[CEU][hapmap];0.94[CHB][hapmap];0.83[EUR][1000 genomes]
rs7093656	0.96[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs7098224	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]

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	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv831865	chr10:49994254-50164239	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50121000-50155800	Weak transcription	Primary T cells from cord blood	blood
2	chr10:50125400-50154400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr10:50134600-50160400	Weak transcription	Right Atrium	heart
4	chr10:50143400-50153200	Weak transcription	Fetal Muscle Leg	muscle
5	chr10:50143600-50164400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:50144600-50196200	Strong transcription	Primary B cells from cord blood	blood
7	chr10:50145000-50193200	Strong transcription	Primary B cells from peripheral blood	blood
8	chr10:50145400-50193200	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr10:50145800-50193400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr10:50147000-50152800	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr10:50148000-50193600	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr10:50148200-50152400	Strong transcription	GM12878-XiMat	blood
13	chr10:50149600-50161200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:50150400-50159000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr10:50150600-50152800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr10:50151000-50153400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr10:50151200-50153800	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr10:50152200-50154600	Weak transcription	Spleen	Spleen

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