Variant report

Variant	rs28663455
Chromosome Location	chr16:47739923-47739924
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:47739084..47740587-chr16:47746132..47748221,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs13329876	1.00[AFR][1000 genomes]
rs13331276	1.00[AFR][1000 genomes]
rs13332687	1.00[AFR][1000 genomes]
rs13332822	1.00[AFR][1000 genomes]
rs13334954	1.00[AFR][1000 genomes]
rs13335589	1.00[AFR][1000 genomes]
rs13336440	1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13336864	1.00[AFR][1000 genomes]
rs13337909	1.00[AFR][1000 genomes]
rs13338192	1.00[AFR][1000 genomes]
rs13339329	1.00[AFR][1000 genomes]
rs28404995	1.00[AFR][1000 genomes]
rs28405972	1.00[AFR][1000 genomes]
rs28430442	1.00[AFR][1000 genomes]
rs28441575	1.00[AFR][1000 genomes]
rs28446873	1.00[AFR][1000 genomes]
rs28474983	1.00[AFR][1000 genomes]
rs28533453	1.00[AFR][1000 genomes]
rs28674891	1.00[AFR][1000 genomes]
rs28691569	1.00[AFR][1000 genomes]
rs28709022	1.00[AFR][1000 genomes]
rs28768157	1.00[AFR][1000 genomes]
rs28811125	1.00[AFR][1000 genomes]
rs34514482	1.00[AFR][1000 genomes]
rs9921060	1.00[AFR][1000 genomes]
rs9921690	1.00[AFR][1000 genomes]
rs9922236	1.00[AFR][1000 genomes]
rs9922531	1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9922863	1.00[AFR][1000 genomes]
rs9922954	1.00[AFR][1000 genomes]
rs9924052	1.00[AFR][1000 genomes]
rs9924144	1.00[AFR][1000 genomes]
rs9924420	1.00[AFR][1000 genomes]
rs9925039	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9925499	1.00[AFR][1000 genomes]
rs9928023	1.00[AFR][1000 genomes]
rs9928782	1.00[AFR][1000 genomes]
rs9930919	1.00[AFR][1000 genomes]
rs9931999	1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9932380	0.87[AFR][1000 genomes]
rs9934103	1.00[AFR][1000 genomes]
rs9934849	1.00[AFR][1000 genomes]
rs9935072	1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9935386	1.00[AFR][1000 genomes]
rs9935939	1.00[AFR][1000 genomes]
rs9936017	1.00[AFR][1000 genomes]
rs9936168	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9936755	1.00[AFR][1000 genomes]
rs9937013	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9938457	1.00[AFR][1000 genomes]
rs9938504	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9940111	1.00[AFR][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	nsv520355	chr16:47424828-48164777	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv525976	chr16:47583872-48035026	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:47717800-47746600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr16:47727600-47746800	Weak transcription	HSMM	muscle
3	chr16:47729600-47744200	Weak transcription	Gastric	stomach
4	chr16:47730800-47746200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr16:47731800-47746200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr16:47732000-47740400	Weak transcription	Pancreas	Pancrea
7	chr16:47732000-47746200	Weak transcription	Lung	lung
8	chr16:47732000-47746400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr16:47732000-47746400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr16:47733400-47743200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr16:47733400-47745600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr16:47733400-47745600	Weak transcription	Placenta	Placenta
13	chr16:47733400-47747200	Weak transcription	Duodenum Mucosa	Duodenum
14	chr16:47733600-47740400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr16:47733600-47746400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr16:47733600-47746600	Weak transcription	GM12878-XiMat	blood
17	chr16:47733800-47744600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr16:47733800-47750200	Weak transcription	Brain Germinal Matrix	brain
19	chr16:47735000-47746600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr16:47735600-47747000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr16:47736000-47743800	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr16:47736600-47746000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr16:47739200-47740000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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