Variant report

Variant	rs55878548
Chromosome Location	chr9:98527983-98527984
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs4743291	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs4743315	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62558997	1.00[AFR][1000 genomes]
rs62558998	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs62559000	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs62559001	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62559003	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72756389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72756391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][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	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98518200-98528800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:98526200-98529200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:98526200-98529800	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr9:98526200-98529800	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr9:98526200-98529800	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr9:98526200-98529800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr9:98526200-98530000	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr9:98526200-98530200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:98526400-98528200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:98526400-98529600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr9:98526400-98529600	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr9:98526400-98529600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:98526400-98530000	Enhancers	H1 Cell Line	embryonic stem cell
14	chr9:98526800-98528000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr9:98526800-98529600	Enhancers	H9 Cell Line	embryonic stem cell
16	chr9:98527000-98528000	Active TSS	Stomach Smooth Muscle	stomach
17	chr9:98527000-98532200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr9:98527200-98528000	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr9:98527200-98528000	Active TSS	Rectal Smooth Muscle	rectum
20	chr9:98527200-98529000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
21	chr9:98527600-98528000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr9:98527600-98528000	Enhancers	Fetal Intestine Large	intestine
23	chr9:98527600-98528000	Enhancers	Fetal Kidney	kidney
24	chr9:98527600-98528000	Enhancers	HMEC	breast
25	chr9:98527600-98528600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr9:98527600-98528600	Enhancers	NHLF	lung
27	chr9:98527600-98529600	Enhancers	Fetal Lung	lung
28	chr9:98527600-98531800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr9:98527600-98532600	Weak transcription	Ovary	ovary
30	chr9:98527600-98533000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr9:98527600-98533800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr9:98527800-98528000	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr9:98527800-98528000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:98527800-98528000	Enhancers	HepG2	liver
35	chr9:98527800-98528200	Enhancers	NHEK	skin
36	chr9:98527800-98532400	Weak transcription	Fetal Stomach	stomach

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