Variant report

Variant	rs261899
Chromosome Location	chr12:32464382-32464383
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	chr12:32461768..32463542-chr12:32464006..32465889,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1239569	0.86[ASN][1000 genomes]
rs171885	0.88[ASN][1000 genomes]
rs174436	0.89[ASN][1000 genomes]
rs182010	0.82[ASN][1000 genomes]
rs183790	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs187789	0.84[ASN][1000 genomes]
rs261890	0.86[ASN][1000 genomes]
rs261891	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs261896	0.86[ASN][1000 genomes]
rs261897	0.88[ASN][1000 genomes]
rs261900	0.88[ASN][1000 genomes]
rs261904	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2650120	0.82[ASN][1000 genomes]
rs2728699	0.86[ASN][1000 genomes]
rs792867	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS 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	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer 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
3	nsv558171	chr12:32287259-32559693	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv832366	chr12:32328559-32511360	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32443600-32465000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr12:32443800-32464600	Weak transcription	NHDF-Ad	bronchial
3	chr12:32443800-32464800	Weak transcription	Brain Substantia Nigra	brain
4	chr12:32443800-32480400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr12:32444200-32465000	Weak transcription	Hela-S3	cervix
6	chr12:32445800-32464800	Weak transcription	Brain Hippocampus Middle	brain
7	chr12:32447600-32465000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr12:32449200-32480400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr12:32449600-32490200	Weak transcription	HSMMtube	muscle
10	chr12:32450200-32464800	Weak transcription	Adipose Nuclei	Adipose
11	chr12:32450200-32464800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr12:32450400-32480200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr12:32452800-32465000	Weak transcription	Primary hematopoietic stem cells	blood
14	chr12:32454800-32465000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr12:32455200-32480400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr12:32455600-32464600	Weak transcription	GM12878-XiMat	blood
17	chr12:32456400-32480400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr12:32457200-32494400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr12:32459200-32464800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr12:32459200-32465000	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr12:32459200-32480200	Weak transcription	Primary B cells from cord blood	blood
22	chr12:32459200-32480800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr12:32459400-32480600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr12:32459600-32464600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr12:32460400-32480600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr12:32460400-32514600	Weak transcription	HMEC	breast
27	chr12:32460600-32465000	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr12:32460600-32480600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr12:32460800-32464400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr12:32460800-32480400	Weak transcription	Osteobl	bone
31	chr12:32461000-32480800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr12:32461200-32464400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr12:32461200-32464600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr12:32461200-32465000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr12:32461200-32480200	Weak transcription	HSMM	muscle
36	chr12:32461400-32464800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr12:32461400-32464800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr12:32461400-32480000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr12:32461400-32480200	Weak transcription	NH-A	brain
40	chr12:32461600-32472000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr12:32461800-32480400	Weak transcription	Primary T cells from cord blood	blood
42	chr12:32462400-32465200	Enhancers	Fetal Intestine Large	intestine
43	chr12:32462600-32465000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr12:32463000-32464600	Enhancers	HUVEC	blood vessel
45	chr12:32463000-32480200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr12:32463200-32480200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr12:32463400-32464800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr12:32463400-32464800	Weak transcription	A549	lung
49	chr12:32463400-32464800	Weak transcription	Dnd41	blood
50	chr12:32463600-32464800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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