Variant report

Variant	rs60409860
Chromosome Location	chr15:56397453-56397454
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56385120..56387921-chr15:56395938..56398667,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs58074377	0.84[AFR][1000 genomes]
rs60307110	0.82[AFR][1000 genomes]
rs60398723	0.81[AFR][1000 genomes]
rs61176298	0.88[AFR][1000 genomes]
rs61387999	1.00[AMR][1000 genomes]
rs7163119	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7167598	0.82[AFR][1000 genomes]
rs7169697	0.89[AFR][1000 genomes]
rs73409498	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411506	0.81[AFR][1000 genomes]
rs74017478	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74017486	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74018319	0.95[AFR][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	esv2761872	chr15:56211065-56426501	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv833018	chr15:56325799-56492535	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045906	chr15:56333180-56473614	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56382200-56399200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:56383800-56398400	Strong transcription	Dnd41	blood
3	chr15:56385600-56405600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:56388400-56402000	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr15:56388800-56398400	Weak transcription	Esophagus	oesophagus
6	chr15:56388800-56399000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr15:56388800-56399200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:56388800-56400600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:56388800-56403400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:56388800-56411600	Weak transcription	Fetal Stomach	stomach
11	chr15:56388800-56414400	Weak transcription	Thymus	Thymus
12	chr15:56388800-56418400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:56388800-56433000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr15:56388800-56437200	Weak transcription	Pancreas	Pancrea
15	chr15:56388800-56441600	Weak transcription	Lung	lung
16	chr15:56389000-56398400	Weak transcription	K562	blood
17	chr15:56389400-56407600	Weak transcription	Brain Substantia Nigra	brain
18	chr15:56389400-56418400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr15:56389400-56418400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr15:56389600-56402000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr15:56389600-56414400	Weak transcription	HSMMtube	muscle
22	chr15:56389800-56415600	Weak transcription	Placenta	Placenta
23	chr15:56390000-56405600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr15:56390000-56405600	Weak transcription	Fetal Intestine Small	intestine
25	chr15:56390400-56398200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:56390400-56414400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr15:56390600-56398600	Weak transcription	Fetal Muscle Trunk	muscle
28	chr15:56390600-56400400	Weak transcription	GM12878-XiMat	blood
29	chr15:56390600-56412600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr15:56390600-56413200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr15:56390600-56414200	Weak transcription	Fetal Lung	lung
32	chr15:56390600-56414200	Weak transcription	Left Ventricle	heart
33	chr15:56390600-56414600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr15:56390600-56416400	Weak transcription	HUVEC	blood vessel
35	chr15:56390600-56417400	Weak transcription	Adipose Nuclei	Adipose
36	chr15:56390600-56418000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr15:56390800-56418600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr15:56391000-56411800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr15:56391200-56407200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr15:56391800-56415800	Weak transcription	Ovary	ovary
41	chr15:56392400-56398400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr15:56392600-56417200	Weak transcription	Brain Hippocampus Middle	brain
43	chr15:56393800-56412400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr15:56394000-56405600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr15:56394000-56414200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr15:56394000-56418200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:56394200-56407800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr15:56394200-56417000	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr15:56394400-56398800	Weak transcription	Primary B cells from cord blood	blood
50	chr15:56394400-56411000	Weak transcription	Liver	Liver

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