Variant report

Variant	rs2861555
Chromosome Location	chr10:98334182-98334183
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10128106	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1018604	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1018605	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1051450	0.82[ASN][1000 genomes]
rs1063605	0.82[ASN][1000 genomes]
rs10882811	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10882813	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10882817	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10882821	0.82[ASN][1000 genomes]
rs10882822	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11188827	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11188831	0.85[ASN][1000 genomes]
rs11188832	0.85[ASN][1000 genomes]
rs11188833	0.85[ASN][1000 genomes]
rs11188842	0.82[ASN][1000 genomes]
rs11188844	0.82[ASN][1000 genomes]
rs12219275	0.85[ASN][1000 genomes]
rs12220047	0.85[ASN][1000 genomes]
rs12775533	0.82[ASN][1000 genomes]
rs12776810	0.82[ASN][1000 genomes]
rs1324256	0.85[ASN][1000 genomes]
rs1324259	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1324261	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1408367	0.85[ASN][1000 genomes]
rs2025451	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2031326	0.85[ASN][1000 genomes]
rs2031329	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs33964467	0.82[ASN][1000 genomes]
rs35779764	0.82[ASN][1000 genomes]
rs3748237	0.82[ASN][1000 genomes]
rs3789957	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3818389	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4919029	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4919032	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4919037	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61859300	0.82[ASN][1000 genomes]
rs7070686	0.82[ASN][1000 genomes]
rs7071044	0.82[ASN][1000 genomes]
rs7071881	0.82[ASN][1000 genomes]
rs7074516	0.82[ASN][1000 genomes]
rs7082873	0.85[ASN][1000 genomes]
rs7085389	0.82[ASN][1000 genomes]
rs7086213	0.82[ASN][1000 genomes]
rs7097291	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7448	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7919739	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8578	0.82[ASN][1000 genomes]
rs927639	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9633703	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2861555	NPM1P26	cis	Adipose Subcutaneous	GTEx
rs2861555	NPM1P26	cis	Stomach	GTEx
rs2861555	NPM1P26	cis	Esophagus Muscularis	GTEx

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98276400-98343200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:98286600-98338400	Weak transcription	Aorta	Aorta
3	chr10:98286600-98339400	Weak transcription	Brain Angular Gyrus	brain
4	chr10:98286600-98345600	Weak transcription	Esophagus	oesophagus
5	chr10:98290000-98344200	Weak transcription	Spleen	Spleen
6	chr10:98292600-98344800	Weak transcription	Brain Germinal Matrix	brain
7	chr10:98307800-98341600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr10:98314400-98345600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:98319200-98338400	Weak transcription	Colonic Mucosa	Colon
10	chr10:98320200-98344800	Weak transcription	HSMMtube	muscle
11	chr10:98320400-98341600	Weak transcription	Brain Cingulate Gyrus	brain
12	chr10:98321800-98336800	Weak transcription	HMEC	breast
13	chr10:98322200-98343400	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr10:98323000-98339600	Weak transcription	K562	blood
15	chr10:98323200-98334400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr10:98324000-98338000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr10:98324200-98334400	Weak transcription	Fetal Thymus	thymus
18	chr10:98324400-98339600	Weak transcription	Adipose Nuclei	Adipose
19	chr10:98324600-98334600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr10:98324600-98334800	Weak transcription	NH-A	brain
21	chr10:98324600-98345000	Weak transcription	Fetal Kidney	kidney
22	chr10:98325200-98336200	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr10:98326000-98336000	Weak transcription	NHLF	lung
24	chr10:98326200-98334600	Weak transcription	Osteobl	bone
25	chr10:98326400-98338400	Weak transcription	Brain Anterior Caudate	brain
26	chr10:98326400-98339000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:98326600-98336200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr10:98326600-98341600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:98326800-98336400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr10:98326800-98336600	Weak transcription	Primary T cells from cord blood	blood
31	chr10:98327200-98337200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr10:98327600-98339600	Weak transcription	Thymus	Thymus
33	chr10:98327600-98339800	Weak transcription	Right Atrium	heart
34	chr10:98327800-98334400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr10:98327800-98336200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr10:98328000-98343200	Weak transcription	Stomach Smooth Muscle	stomach
37	chr10:98328200-98334600	Weak transcription	Placenta	Placenta
38	chr10:98328200-98336400	Weak transcription	A549	lung
39	chr10:98328200-98341400	Weak transcription	NHDF-Ad	bronchial
40	chr10:98328800-98334600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr10:98328800-98335600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr10:98328800-98336400	Weak transcription	Colon Smooth Muscle	Colon
43	chr10:98328800-98339600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr10:98328800-98339600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr10:98328800-98339600	Weak transcription	Fetal Brain Female	brain
46	chr10:98329000-98339800	Weak transcription	Lung	lung
47	chr10:98329200-98334400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr10:98329200-98336200	Weak transcription	Brain Hippocampus Middle	brain
49	chr10:98329200-98336800	Weak transcription	Rectal Smooth Muscle	rectum
50	chr10:98329200-98345000	Weak transcription	Fetal Stomach	stomach

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