Variant report

Variant	rs4903666
Chromosome Location	chr14:78358877-78358878
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:78346765..78348633-chr14:78356131..78358979,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs11159291	0.87[CHB][hapmap]
rs11159294	0.84[CEU][hapmap];0.82[CHB][hapmap];0.81[AMR][1000 genomes]
rs11159298	0.81[CEU][hapmap];0.87[CHB][hapmap]
rs11159299	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11159300	0.93[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11159301	0.93[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11159302	0.92[CEU][hapmap];0.86[CHB][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11159303	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11159305	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11621642	0.84[AMR][1000 genomes]
rs11622297	0.92[CEU][hapmap];0.83[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11625833	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11626480	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11629157	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12587361	0.93[CEU][hapmap];0.88[CHB][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12590199	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12878486	0.93[ASN][1000 genomes]
rs12878904	0.84[CHB][hapmap]
rs12879726	0.85[CEU][hapmap];0.81[AMR][1000 genomes]
rs12879890	0.82[AMR][1000 genomes]
rs12884153	0.85[CEU][hapmap];0.83[AMR][1000 genomes]
rs12891444	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12897885	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17826188	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2003600	0.85[CEU][hapmap];0.83[AMR][1000 genomes]
rs2010591	0.80[CHB][hapmap]
rs2013130	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2080815	0.88[CHB][hapmap]
rs2080816	0.87[CHB][hapmap]
rs2080817	0.92[CEU][hapmap];0.87[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2080818	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2098584	0.86[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2287648	0.87[CHB][hapmap]
rs2287650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2364743	0.93[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2364842	0.85[CEU][hapmap]
rs2886166	0.82[AMR][1000 genomes]
rs3783961	0.93[ASN][1000 genomes]
rs3783962	0.96[CEU][hapmap];0.88[CHB][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3783966	0.92[CEU][hapmap];0.87[CHB][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3783968	0.92[CEU][hapmap];0.87[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3783969	0.93[CEU][hapmap];0.84[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3783970	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3783972	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4359362	0.85[CEU][hapmap];0.81[AMR][1000 genomes]
rs4393507	0.85[CEU][hapmap];0.84[AMR][1000 genomes]
rs4411442	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4899677	0.82[CHB][hapmap]
rs4899678	0.87[CHB][hapmap]
rs4903654	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs4903656	0.92[CEU][hapmap];0.87[CHB][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4903657	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4903658	0.92[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4903663	0.92[CEU][hapmap];0.87[CHB][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4903667	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7145567	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7146020	0.83[CHB][hapmap]
rs7147735	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7149884	0.92[CEU][hapmap];0.87[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7149911	0.87[CHB][hapmap]
rs7151404	0.84[CHB][hapmap]
rs719049	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs726538	0.84[CEU][hapmap];0.82[CHB][hapmap];0.83[AMR][1000 genomes]
rs734654	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs741573	0.93[CEU][hapmap];0.88[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs741574	0.92[CEU][hapmap];0.87[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7493235	0.83[AMR][1000 genomes]
rs7494718	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8009433	0.84[CHB][hapmap]
rs8014296	0.81[CEU][hapmap];0.87[CHB][hapmap]
rs8018963	0.93[ASN][1000 genomes]
rs8020016	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs877561	0.92[CEU][hapmap];0.91[CHB][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs962539	0.84[CHB][hapmap]
rs962540	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043788	chr14:78178490-78381190	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4903666	ADCK1	cis	multi-tissue	Pritchard

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:78327800-78400600	Weak transcription	Colonic Mucosa	Colon
2	chr14:78346600-78375600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr14:78347200-78366000	Weak transcription	Psoas Muscle	Psoas
4	chr14:78349200-78397200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr14:78349200-78407200	Weak transcription	Colon Smooth Muscle	Colon
6	chr14:78349400-78378000	Weak transcription	Fetal Brain Female	brain
7	chr14:78350400-78361200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr14:78350600-78365400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr14:78350800-78375800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr14:78350800-78376200	Weak transcription	Brain Angular Gyrus	brain
11	chr14:78352600-78398800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr14:78354000-78375800	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr14:78354000-78375800	Weak transcription	Gastric	stomach
14	chr14:78354400-78374400	Weak transcription	Fetal Muscle Leg	muscle
15	chr14:78354600-78359000	Weak transcription	Right Ventricle	heart
16	chr14:78354600-78360000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr14:78354600-78365400	Weak transcription	Brain Anterior Caudate	brain
18	chr14:78354600-78366800	Weak transcription	Fetal Stomach	stomach
19	chr14:78354600-78367400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr14:78354600-78368400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr14:78354600-78368600	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr14:78354600-78375800	Weak transcription	Brain Substantia Nigra	brain
23	chr14:78354800-78365400	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr14:78354800-78379200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr14:78354800-78391600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr14:78355000-78363000	Weak transcription	Fetal Muscle Trunk	muscle
27	chr14:78355000-78365400	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr14:78355000-78365400	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr14:78355000-78374000	Weak transcription	Ovary	ovary
30	chr14:78355000-78375400	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr14:78355000-78390800	Weak transcription	Spleen	Spleen
32	chr14:78355000-78391600	Weak transcription	Esophagus	oesophagus
33	chr14:78355200-78375000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr14:78355400-78368400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr14:78355400-78370600	Weak transcription	Dnd41	blood
36	chr14:78355600-78398000	Weak transcription	Rectal Smooth Muscle	rectum
37	chr14:78355800-78360200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr14:78356000-78368800	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr14:78356000-78393600	Weak transcription	Duodenum Mucosa	Duodenum
40	chr14:78356000-78398600	Weak transcription	Fetal Intestine Large	intestine
41	chr14:78356200-78359400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr14:78356200-78390800	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr14:78356400-78365400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr14:78356600-78363400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr14:78356600-78365000	Weak transcription	Primary T cells from cord blood	blood
46	chr14:78356600-78365400	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr14:78356800-78365200	Weak transcription	Stomach Smooth Muscle	stomach
48	chr14:78356800-78365600	Weak transcription	Adipose Nuclei	Adipose
49	chr14:78356800-78368000	Weak transcription	Brain Hippocampus Middle	brain
50	chr14:78356800-78369000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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