Variant report

Variant	rs2576929
Chromosome Location	chr15:40072311-40072312
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	chr15:40071940..40073797-chr15:40075323..40078036,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1166718	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1166722	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1166723	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12592687	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1688087	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2576932	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2576933	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2631714	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2631717	0.87[AFR][1000 genomes]
rs2638009	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34943556	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4115216	0.88[ASN][1000 genomes]
rs4924385	0.86[EUR][1000 genomes]
rs4924389	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4924391	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs592172	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs594863	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs606927	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs620407	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6492914	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6492919	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66496275	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs670748	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7165244	0.83[ASN][1000 genomes]
rs7179417	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8031241	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8033485	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8033957	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40059400-40074400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:40063800-40074000	Weak transcription	Brain Angular Gyrus	brain
3	chr15:40064000-40074000	Weak transcription	Brain Anterior Caudate	brain
4	chr15:40064200-40073800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:40064400-40074200	Weak transcription	Osteobl	bone
6	chr15:40067600-40073800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:40068000-40073800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr15:40068200-40073800	Weak transcription	Dnd41	blood
9	chr15:40069800-40074000	Weak transcription	GM12878-XiMat	blood
10	chr15:40070000-40074200	Weak transcription	NHDF-Ad	bronchial
11	chr15:40070200-40074000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr15:40070200-40074200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr15:40070200-40074200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr15:40070200-40074200	Weak transcription	HSMMtube	muscle
15	chr15:40070200-40074400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:40070400-40073800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr15:40070400-40073800	Weak transcription	HepG2	liver
18	chr15:40070400-40074000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr15:40070400-40074200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:40070400-40074200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr15:40070400-40074200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:40070400-40074200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr15:40070400-40074200	Weak transcription	NH-A	brain
24	chr15:40070400-40074400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:40070600-40073800	Weak transcription	K562	blood
26	chr15:40070600-40074000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr15:40070600-40074200	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr15:40070600-40074200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr15:40070600-40074400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr15:40070800-40073600	Weak transcription	Primary hematopoietic stem cells	blood
31	chr15:40070800-40074200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr15:40070800-40074200	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:40071000-40073200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr15:40071600-40073800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr15:40071800-40073800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr15:40071800-40073800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr15:40072200-40073800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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