Variant report

Variant	rs885954
Chromosome Location	chr9:108409400-108409401
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:108396793..108398414-chr9:108407668..108410214,2	K562	blood:
2	chr9:108396717..108400413-chr9:108407791..108411231,4	K562	blood:
3	chr9:108408623..108415220-chr9:108455348..108460683,7	K562	blood:

Variant related genes	Relation type
ENSG00000095209	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10491808	0.90[LWK][hapmap];0.86[YRI][hapmap]
rs10991676	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs12115847	0.90[LWK][hapmap];0.86[YRI][hapmap]
rs17251166	0.81[LWK][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes]
rs17308339	0.86[YRI][hapmap]
rs17309806	0.82[ASW][hapmap];0.96[LWK][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes]
rs2518108	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2771028	0.90[LWK][hapmap];0.86[YRI][hapmap]
rs2812309	0.86[YRI][hapmap]
rs4742950	0.86[YRI][hapmap]
rs4742953	0.90[YRI][hapmap]
rs4742954	0.90[YRI][hapmap];0.87[AFR][1000 genomes]
rs4742956	0.82[ASW][hapmap];0.93[LWK][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes]
rs59474306	0.84[AFR][1000 genomes]
rs62575144	0.89[AFR][1000 genomes]
rs7037972	0.90[YRI][hapmap];0.82[AFR][1000 genomes]
rs7851777	0.95[YRI][hapmap];0.94[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519023	chr9:108371549-108454745	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs885954	ZNF189	cis	parietal	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108354400-108412400	Weak transcription	Right Ventricle	heart
2	chr9:108354600-108412200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr9:108366800-108418200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr9:108366800-108418200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:108397600-108411800	Weak transcription	Lung	lung
6	chr9:108401600-108418000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr9:108402800-108409600	Weak transcription	Ovary	ovary
8	chr9:108403800-108410200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:108408400-108410400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:108408800-108409400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr9:108408800-108410600	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr9:108408800-108410600	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr9:108408800-108411200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:108409000-108410000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr9:108409000-108410200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr9:108409000-108410600	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr9:108409000-108410600	Enhancers	Fetal Muscle Leg	muscle
18	chr9:108409000-108410800	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr9:108409000-108410800	Flanking Active TSS	K562	blood
20	chr9:108409200-108409800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr9:108409200-108409800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr9:108409200-108410200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:108409200-108410200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr9:108409200-108410600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr9:108409200-108410600	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr9:108409200-108410600	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr9:108409400-108410400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
28	chr9:108409400-108410400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr9:108409400-108410600	Enhancers	H1 Cell Line	embryonic stem cell

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