Variant report

Variant	rs2146806
Chromosome Location	chr10:116590106-116590107
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	chr10:116579610..116582453-chr10:116588373..116590757,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151553	Chromatin interaction

Extended variants
information (count: 91 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs1046492	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10490908	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10510007	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10885613	0.88[AFR][1000 genomes]
rs10885614	0.88[AFR][1000 genomes]
rs11196924	0.98[AFR][1000 genomes]
rs11196929	0.88[AFR][1000 genomes]
rs11196930	0.88[AFR][1000 genomes]
rs11196932	0.88[AFR][1000 genomes]
rs11196935	0.83[AFR][1000 genomes]
rs11196936	0.88[AFR][1000 genomes]
rs11196937	0.88[AFR][1000 genomes]
rs11196939	0.88[AFR][1000 genomes]
rs11196940	0.80[AFR][1000 genomes]
rs11196941	0.86[AFR][1000 genomes]
rs11196943	0.85[AFR][1000 genomes]
rs11196944	0.83[AFR][1000 genomes]
rs11196945	0.83[AFR][1000 genomes]
rs11196947	0.80[AFR][1000 genomes]
rs11196948	0.84[AFR][1000 genomes]
rs11196950	0.86[AFR][1000 genomes]
rs11196951	0.86[AFR][1000 genomes]
rs11196952	0.84[AFR][1000 genomes]
rs11196953	0.84[AFR][1000 genomes]
rs11818115	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12218498	0.87[AFR][1000 genomes]
rs12415173	0.88[AFR][1000 genomes]
rs12765350	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12771956	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12772800	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12773943	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12775180	1.00[ASN][1000 genomes]
rs1359079	0.87[AFR][1000 genomes]
rs17092497	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17092542	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17586888	0.82[AFR][1000 genomes]
rs17663670	0.85[AFR][1000 genomes]
rs17721283	1.00[ASN][1000 genomes]
rs17794346	1.00[ASN][1000 genomes]
rs1966384	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2146805	0.85[AFR][1000 genomes]
rs2420065	0.88[AFR][1000 genomes]
rs2420066	0.88[AFR][1000 genomes]
rs2420067	0.87[AFR][1000 genomes]
rs2420069	0.86[AFR][1000 genomes]
rs3180654	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34064819	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34187191	1.00[ASN][1000 genomes]
rs34683721	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35010779	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35622181	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35628210	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36036948	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36089581	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3758603	0.86[AFR][1000 genomes]
rs41284358	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55711292	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58587374	0.85[AFR][1000 genomes]
rs60820172	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61596353	0.84[AFR][1000 genomes]
rs61867965	0.87[AFR][1000 genomes]
rs61867966	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61867967	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61868018	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68085797	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7072356	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7072364	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7074729	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7075888	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079877	0.86[AFR][1000 genomes]
rs7093674	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7094072	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs749649	1.00[ASN][1000 genomes]
rs765174	0.80[AFR][1000 genomes]
rs7895551	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7897937	0.88[AFR][1000 genomes]
rs7903663	0.84[AFR][1000 genomes]
rs7904188	0.88[AFR][1000 genomes]
rs7909566	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909657	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7914792	0.88[AFR][1000 genomes]
rs7918253	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918388	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919649	0.88[AFR][1000 genomes]
rs7920216	0.88[AFR][1000 genomes]
rs7923295	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181444	0.88[AFR][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	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2146806	FAM160B1	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116582600-116596800	Weak transcription	Lung	lung
2	chr10:116582600-116597000	Weak transcription	Spleen	Spleen
3	chr10:116582800-116593000	Weak transcription	Colonic Mucosa	Colon
4	chr10:116582800-116604400	Weak transcription	Esophagus	oesophagus
5	chr10:116583000-116593200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr10:116583000-116594800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:116583000-116596200	Weak transcription	Brain Substantia Nigra	brain
8	chr10:116583000-116617600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr10:116583200-116590600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr10:116583200-116591000	Weak transcription	Fetal Intestine Large	intestine
11	chr10:116583200-116592800	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr10:116583200-116594000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:116583200-116616800	Weak transcription	K562	blood
14	chr10:116583400-116592400	Weak transcription	Fetal Muscle Trunk	muscle
15	chr10:116583600-116591000	Weak transcription	Fetal Muscle Leg	muscle
16	chr10:116583600-116591600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr10:116583800-116590600	Weak transcription	Primary B cells from cord blood	blood
18	chr10:116583800-116601600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr10:116584000-116591000	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr10:116584200-116593000	Weak transcription	Thymus	Thymus
21	chr10:116584200-116593400	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr10:116584400-116590800	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr10:116584400-116591000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr10:116584400-116597400	Weak transcription	Fetal Brain Male	brain
25	chr10:116584600-116590800	Weak transcription	Primary T cells from cord blood	blood
26	chr10:116584600-116591000	Weak transcription	Fetal Stomach	stomach
27	chr10:116584600-116591000	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr10:116584600-116591400	Weak transcription	Fetal Kidney	kidney
29	chr10:116584600-116592600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr10:116584600-116608400	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr10:116584800-116593200	Weak transcription	Fetal Brain Female	brain
32	chr10:116585200-116591000	Weak transcription	Brain Angular Gyrus	brain
33	chr10:116585600-116591000	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr10:116585600-116592400	Weak transcription	Brain Hippocampus Middle	brain
35	chr10:116585800-116596400	Weak transcription	Brain Germinal Matrix	brain
36	chr10:116586000-116590800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:116586000-116590800	Weak transcription	Fetal Thymus	thymus
38	chr10:116586000-116590800	Weak transcription	Dnd41	blood
39	chr10:116586000-116591000	Weak transcription	Brain Anterior Caudate	brain
40	chr10:116586000-116591200	Weak transcription	Rectal Smooth Muscle	rectum
41	chr10:116586000-116592600	Weak transcription	Stomach Smooth Muscle	stomach
42	chr10:116586000-116593000	Weak transcription	HepG2	liver
43	chr10:116586000-116594600	Weak transcription	Brain Cingulate Gyrus	brain
44	chr10:116586000-116604800	Weak transcription	Fetal Heart	heart
45	chr10:116586200-116590800	Weak transcription	Colon Smooth Muscle	Colon
46	chr10:116586200-116600200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr10:116586400-116590400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr10:116586400-116590800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr10:116586400-116590800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr10:116586400-116590800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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