Variant report

Variant	rs4899657
Chromosome Location	chr14:78011598-78011599
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	chr14:78009315..78010899-chr14:78010938..78012880,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10132095	0.84[ASW][hapmap];0.92[YRI][hapmap]
rs10136221	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10142919	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12889681	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1474504	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1973866	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2091915	0.91[ASW][hapmap];0.91[LWK][hapmap];0.92[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2142186	0.84[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2178876	1.00[ASW][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2364159	0.92[YRI][hapmap]
rs2364160	0.92[YRI][hapmap]
rs4145507	0.90[YRI][hapmap]
rs4903598	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs4903601	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4903609	1.00[AMR][1000 genomes]
rs4903612	1.00[AMR][1000 genomes]
rs6574380	0.80[AFR][1000 genomes]
rs6574381	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7156665	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7157218	0.91[YRI][hapmap]
rs7157643	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7400794	1.00[AMR][1000 genomes]
rs7401921	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7401985	0.81[AFR][1000 genomes]
rs760258	0.83[ASW][hapmap];0.92[YRI][hapmap]
rs8003293	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8004422	1.00[AMR][1000 genomes]
rs8010591	1.00[AMR][1000 genomes]
rs8022297	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs926114	0.92[ASW][hapmap];0.92[YRI][hapmap]
rs926115	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs963897	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9972134	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][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	nsv832835	chr14:77906706-78095207	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1053810	chr14:77987871-78148320	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1051554	chr14:78004196-78122980	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:77970200-78047200	Weak transcription	Fetal Heart	heart
2	chr14:77972000-78018000	Weak transcription	Hela-S3	cervix
3	chr14:77978000-78013400	Weak transcription	NHDF-Ad	bronchial
4	chr14:77978600-78014600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr14:77978800-78042200	Weak transcription	Fetal Brain Male	brain
6	chr14:77979000-78013800	Weak transcription	Pancreas	Pancrea
7	chr14:77985200-78014800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr14:77985400-78015000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr14:77986200-78013800	Weak transcription	Esophagus	oesophagus
10	chr14:77987400-78021000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr14:77987800-78013400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr14:77987800-78013600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr14:77987800-78013800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr14:77987800-78014600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr14:77987800-78014600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr14:77987800-78014800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr14:77987800-78015000	Weak transcription	Thymus	Thymus
18	chr14:77987800-78015600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr14:77987800-78060000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr14:77988000-78013800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr14:77988000-78013800	Weak transcription	Colonic Mucosa	Colon
22	chr14:77988000-78014600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr14:77988000-78014800	Weak transcription	HMEC	breast
24	chr14:77988000-78015200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr14:77988000-78015600	Weak transcription	Right Ventricle	heart
26	chr14:77988400-78013000	Weak transcription	Small Intestine	intestine
27	chr14:77988400-78013800	Weak transcription	Fetal Muscle Trunk	muscle
28	chr14:77988400-78029400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr14:77988600-78013400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr14:77997800-78018800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr14:78001400-78014000	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr14:78001800-78014000	Weak transcription	Fetal Intestine Small	intestine
33	chr14:78002000-78014800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr14:78002000-78015000	Weak transcription	Lung	lung
35	chr14:78002200-78014400	Weak transcription	A549	lung
36	chr14:78002200-78020800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr14:78002400-78013600	Weak transcription	NHEK	skin
38	chr14:78004000-78014800	Weak transcription	Ovary	ovary
39	chr14:78004600-78014400	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr14:78006800-78019000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr14:78008200-78015600	Weak transcription	NHLF	lung
42	chr14:78008200-78019000	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr14:78008600-78012600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr14:78008800-78012400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr14:78009200-78013600	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr14:78009200-78014800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr14:78009200-78015400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr14:78009400-78013400	Weak transcription	Fetal Thymus	thymus
49	chr14:78009400-78013600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr14:78009600-78013400	Weak transcription	Fetal Lung	lung

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