Variant report

Variant	rs10878097
Chromosome Location	chr12:64341321-64341322
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:64335711..64337439-chr12:64340636..64343314,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10128867	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10784374	0.86[YRI][hapmap]
rs10878096	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11175213	0.81[JPT][hapmap]
rs17099952	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3911399	0.86[YRI][hapmap]
rs7965316	0.86[YRI][hapmap]
rs7973936	0.86[YRI][hapmap]

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	nsv1046836	chr12:63392391-64377169	Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	nsv832442	chr12:64228071-64442771	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv559201	chr12:64333212-64366408	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:64312400-64385000	Weak transcription	Aorta	Aorta
2	chr12:64328800-64360800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr12:64329000-64342200	Weak transcription	Hela-S3	cervix
4	chr12:64329800-64343800	Weak transcription	Osteobl	bone
5	chr12:64330000-64342000	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr12:64330000-64343800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr12:64330400-64346800	Weak transcription	Gastric	stomach
8	chr12:64332200-64343800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr12:64333000-64349200	Weak transcription	HSMM	muscle
10	chr12:64334600-64343400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr12:64334800-64343600	Weak transcription	Stomach Mucosa	stomach
12	chr12:64334800-64344000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr12:64334800-64344000	Weak transcription	Fetal Kidney	kidney
14	chr12:64334800-64349800	Weak transcription	Right Atrium	heart
15	chr12:64334800-64349800	Weak transcription	HSMMtube	muscle
16	chr12:64335800-64343600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr12:64335800-64343800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr12:64336400-64343800	Weak transcription	Brain Angular Gyrus	brain
19	chr12:64336600-64349200	Weak transcription	NHDF-Ad	bronchial
20	chr12:64337000-64343800	Weak transcription	Fetal Brain Female	brain
21	chr12:64338800-64343400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr12:64338800-64343400	Weak transcription	Brain Substantia Nigra	brain
23	chr12:64338800-64344000	Weak transcription	Right Ventricle	heart
24	chr12:64338800-64344200	Weak transcription	Left Ventricle	heart
25	chr12:64339000-64343200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr12:64339000-64343400	Weak transcription	Fetal Stomach	stomach
27	chr12:64339000-64343600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr12:64339000-64343600	Weak transcription	Fetal Intestine Small	intestine
29	chr12:64339000-64343600	Weak transcription	Fetal Lung	lung
30	chr12:64339000-64343800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr12:64339000-64343800	Weak transcription	Adipose Nuclei	Adipose
32	chr12:64339000-64344000	Weak transcription	Fetal Intestine Large	intestine
33	chr12:64339400-64343400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr12:64339400-64343600	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr12:64339400-64345800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr12:64339600-64343400	Weak transcription	Brain Hippocampus Middle	brain
37	chr12:64339600-64344000	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr12:64339600-64349600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr12:64339800-64342000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr12:64339800-64342000	Weak transcription	Brain Cingulate Gyrus	brain
41	chr12:64339800-64343400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr12:64339800-64343400	Weak transcription	HepG2	liver
43	chr12:64339800-64343800	Weak transcription	Brain Germinal Matrix	brain
44	chr12:64339800-64343800	Weak transcription	Ovary	ovary
45	chr12:64339800-64344000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr12:64339800-64344000	Weak transcription	Fetal Brain Male	brain
47	chr12:64339800-64344200	Weak transcription	Lung	lung
48	chr12:64339800-64349200	Weak transcription	NHLF	lung
49	chr12:64339800-64349800	Weak transcription	Pancreas	Pancrea
50	chr12:64340000-64343400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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