Variant report

Variant	rs10858032
Chromosome Location	chr1:114635458-114635459
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:114635004..114637775-chr1:114660348..114663171,3	MCF-7	breast:
2	chr1:114635280..114637076-chr16:67188137..67191058,2	MCF-7	breast:
3	chr1:114635427..114637656-chr1:114664752..114666679,2	MCF-7	breast:
4	chr1:114623758..114625854-chr1:114633416..114636156,2	MCF-7	breast:
5	chr1:114634509..114637387-chr1:114642285..114643909,2	K562	blood:
6	chr1:114631687..114633246-chr1:114634431..114636796,2	K562	blood:

Variant related genes	Relation type
ENSG00000102871	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10494166	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1053135	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1077884	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1079093	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11102729	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12566797	0.82[CHB][hapmap];0.82[CHD][hapmap]
rs2279380	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs745392	0.81[CHB][hapmap]

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	esv2752424	chr1:114189958-114712958	Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Enhancers Active TSS 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	96 gene(s)	inside rSNPs	diseases
2	esv1849780	chr1:114577463-114663164	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10858032	WDR77	cis	cerebellum	SCAN
rs10858032	DENND2C	cis	parietal	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:114619200-114640200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:114625400-114639600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr1:114625400-114639800	Weak transcription	Right Atrium	heart
4	chr1:114630400-114675800	Weak transcription	Pancreas	Pancrea
5	chr1:114631400-114638400	Enhancers	Fetal Lung	lung
6	chr1:114631400-114638800	Weak transcription	Fetal Brain Female	brain
7	chr1:114631800-114636800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr1:114632000-114636600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr1:114632200-114661000	Weak transcription	Brain Germinal Matrix	brain
10	chr1:114632400-114635600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr1:114632400-114637000	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr1:114632600-114636000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr1:114632600-114636000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr1:114632600-114636200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr1:114632800-114636000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
16	chr1:114632800-114636000	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr1:114632800-114636600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
18	chr1:114633000-114636600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
19	chr1:114633000-114637600	Strong transcription	H1 Cell Line	embryonic stem cell
20	chr1:114633000-114648000	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:114633200-114636200	Strong transcription	H9 Cell Line	embryonic stem cell
22	chr1:114633800-114635600	Enhancers	Fetal Muscle Leg	muscle
23	chr1:114634000-114635600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
24	chr1:114634000-114635600	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:114634200-114648400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr1:114634400-114635600	Enhancers	Fetal Stomach	stomach
27	chr1:114634600-114637800	Genic enhancers	HUES6 Cell Line	embryonic stem cell
28	chr1:114634800-114639600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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