Variant report

Variant	rs10759624
Chromosome Location	chr9:100092227-100092228
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10122063	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10125198	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1020884	0.90[EUR][1000 genomes]
rs1020885	0.90[EUR][1000 genomes]
rs1037948	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1037950	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1037951	0.89[EUR][1000 genomes]
rs10435867	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs10435868	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10448274	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10759657	0.90[EUR][1000 genomes]
rs10817487	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10981438	0.83[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10981890	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10981919	0.90[EUR][1000 genomes]
rs10981931	0.88[EUR][1000 genomes]
rs12235305	0.83[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1542506	0.88[EUR][1000 genomes]
rs1544203	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1903635	0.86[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1947717	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2219664	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2242187	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2279114	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306097	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2493442	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2493443	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2502644	0.86[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2615143	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2615145	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2795365	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2795367	0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2818238	0.80[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2818239	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2818243	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs3214072	0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs34955252	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs35609998	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs3747489	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3747493	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3747496	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3802471	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4237189	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4313271	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4366181	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4523384	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4523385	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4554595	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742685	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4742689	0.90[EUR][1000 genomes]
rs4742690	0.90[EUR][1000 genomes]
rs4743072	0.91[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4743076	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743077	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4743084	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4743088	0.90[EUR][1000 genomes]
rs6478095	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6478131	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs713066	0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7470446	0.80[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs750674	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7856924	0.91[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7869536	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9696167	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][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	esv2762823	chr9:100083872-100105782	Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10759624	RP11-520B13.4	cis	Thyroid	GTEx
rs10759624	VN1R51P	cis	Thyroid	GTEx
rs10759624	ANKRD18CP	cis	Thyroid	GTEx
rs10759624	RP11-498P14.5	cis	lung	GTEx
rs10759624	RP11-520B13.4	cis	Esophagus Muscularis	GTEx

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100069400-100092800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr9:100069600-100094400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr9:100070000-100093800	Weak transcription	Psoas Muscle	Psoas
4	chr9:100070000-100098000	Weak transcription	Small Intestine	intestine
5	chr9:100070000-100100200	Weak transcription	Fetal Heart	heart
6	chr9:100070000-100131400	Weak transcription	Fetal Kidney	kidney
7	chr9:100070200-100092600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr9:100070200-100095000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:100070400-100092800	Weak transcription	Colonic Mucosa	Colon
10	chr9:100070400-100095200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:100071000-100094400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr9:100071200-100093000	Strong transcription	Stomach Smooth Muscle	stomach
13	chr9:100071600-100093000	Strong transcription	Fetal Stomach	stomach
14	chr9:100071600-100093400	Strong transcription	Brain Anterior Caudate	brain
15	chr9:100071600-100093800	Strong transcription	Brain Inferior Temporal Lobe	brain
16	chr9:100071600-100093800	Strong transcription	Ovary	ovary
17	chr9:100071600-100094600	Strong transcription	Brain Angular Gyrus	brain
18	chr9:100071800-100093400	Strong transcription	Adipose Nuclei	Adipose
19	chr9:100071800-100093600	Strong transcription	Left Ventricle	heart
20	chr9:100076000-100093200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr9:100076000-100093600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr9:100076200-100092400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:100077000-100106400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr9:100077000-100140800	Weak transcription	Fetal Brain Male	brain
25	chr9:100078400-100092800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr9:100080400-100126400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr9:100083400-100092600	Weak transcription	Primary hematopoietic stem cells	blood
28	chr9:100083800-100098400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr9:100083800-100124000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr9:100084200-100093800	Strong transcription	Fetal Muscle Trunk	muscle
31	chr9:100084400-100093600	Strong transcription	Fetal Muscle Leg	muscle
32	chr9:100084600-100093600	Strong transcription	Skeletal Muscle Female	skeletal muscle
33	chr9:100085600-100099800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr9:100085600-100100200	Weak transcription	Primary B cells from cord blood	blood
35	chr9:100086400-100110400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr9:100086600-100121600	Weak transcription	Right Ventricle	heart
37	chr9:100086600-100132000	Weak transcription	Thymus	Thymus
38	chr9:100086800-100093600	Strong transcription	Aorta	Aorta
39	chr9:100086800-100104000	Weak transcription	Dnd41	blood
40	chr9:100088000-100126200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr9:100088200-100127000	Weak transcription	Duodenum Mucosa	Duodenum
42	chr9:100088400-100092400	Weak transcription	Fetal Lung	lung
43	chr9:100088400-100098600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr9:100088600-100128600	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr9:100088600-100132800	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr9:100088800-100094200	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr9:100088800-100103800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr9:100088800-100121400	Weak transcription	Gastric	stomach
49	chr9:100089000-100092600	Weak transcription	Fetal Intestine Large	intestine
50	chr9:100089000-100093200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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