Summary ?
GeneID348801
SymbolLNP1
SynonymsNP3
Descriptionleukemia NUP98 fusion partner 1
ReferenceHGNC:HGNC:28014|Ensembl:ENSG00000206535|Vega:OTTHUMG00000159082
Gene typeprotein-coding
Map location3q12.2
Pascal p-value0.917
Fetal beta-0.693
DMG1 (# studies)
eGeneAnterior cingulate cortex BA24
Caudate basal ganglia
Cerebellar Hemisphere
Cerebellum
Cortex
Frontal Cortex BA9
Hypothalamus
Nucleus accumbens basal ganglia
Putamen basal ganglia

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.04047 
GSMA_IIEGenome scan meta-analysis (European-ancestry samples)Psr: 0.04359 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg031604453100120349LNP13.37E-10-0.0197.22E-7DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs74341673100162881LNP1ENSG00000206535.31.542E-7014340gtex_brain_ba24
rs117120773100164261LNP1ENSG00000206535.31.425E-7015720gtex_brain_ba24
rs98209733100164750LNP1ENSG00000206535.36.492E-7016209gtex_brain_ba24
rs761177303100165160LNP1ENSG00000206535.34.209E-7016619gtex_brain_ba24
rs49280713100167796LNP1ENSG00000206535.31.211E-7019255gtex_brain_ba24
rs92900593100169270LNP1ENSG00000206535.31.075E-7020729gtex_brain_ba24
rs67973973100170825LNP1ENSG00000206535.32.523E-7022284gtex_brain_ba24
rs576770483100171766LNP1ENSG00000206535.31.207E-7023225gtex_brain_ba24
rs74342443100172198LNP1ENSG00000206535.32.523E-7023657gtex_brain_ba24
rs98403703100173525LNP1ENSG00000206535.32.523E-7024984gtex_brain_ba24
rs11320223100174722LNP1ENSG00000206535.32.523E-7026181gtex_brain_ba24
rs671517803100175801LNP1ENSG00000206535.38.496E-7027260gtex_brain_ba24
rs49280503100178459LNP1ENSG00000206535.32.94E-7029918gtex_brain_ba24
rs38303033100053684LNP1ENSG00000206535.32.566E-70-94857gtex_brain_putamen_basal
rs2776273100055273LNP1ENSG00000206535.38.756E-80-93268gtex_brain_putamen_basal
rs2776213100057203LNP1ENSG00000206535.38.162E-80-91338gtex_brain_putamen_basal
rs2776483100065826LNP1ENSG00000206535.33.095E-70-82715gtex_brain_putamen_basal
rs2776493100067468LNP1ENSG00000206535.33.095E-70-81073gtex_brain_putamen_basal
rs2776463100073826LNP1ENSG00000206535.31.562E-80-74715gtex_brain_putamen_basal
rs3785353100076688LNP1ENSG00000206535.39.395E-80-71853gtex_brain_putamen_basal
rs3978003403100076878LNP1ENSG00000206535.35.643E-80-71663gtex_brain_putamen_basal
rs12143743100085854LNP1ENSG00000206535.31.562E-80-62687gtex_brain_putamen_basal
rs23167013100086477LNP1ENSG00000206535.31.132E-70-62064gtex_brain_putamen_basal
rs2776403100086861LNP1ENSG00000206535.31.562E-80-61680gtex_brain_putamen_basal
rs113844943100092526LNP1ENSG00000206535.31.356E-80-56015gtex_brain_putamen_basal
rs340391273100092527LNP1ENSG00000206535.32.349E-80-56014gtex_brain_putamen_basal
rs2776313100098152LNP1ENSG00000206535.31.237E-80-50389gtex_brain_putamen_basal
rs4218553100099142LNP1ENSG00000206535.31.237E-80-49399gtex_brain_putamen_basal
rs49281713100106412LNP1ENSG00000206535.31.409E-80-42129gtex_brain_putamen_basal
rs21196863100110360LNP1ENSG00000206535.36.23E-80-38181gtex_brain_putamen_basal
rs117111123100112168LNP1ENSG00000206535.31.562E-80-36373gtex_brain_putamen_basal
rs126961053100112816LNP1ENSG00000206535.31.562E-80-35725gtex_brain_putamen_basal
rs67814223100114263LNP1ENSG00000206535.31.562E-80-34278gtex_brain_putamen_basal
rs587193583100116813LNP1ENSG00000206535.35.415E-90-31728gtex_brain_putamen_basal
rs22895043100120850LNP1ENSG00000206535.31.562E-80-27691gtex_brain_putamen_basal
rs22895033100121121LNP1ENSG00000206535.31.562E-80-27420gtex_brain_putamen_basal
rs10367693100122081LNP1ENSG00000206535.31.571E-80-26460gtex_brain_putamen_basal
rs109362003100154075LNP1ENSG00000206535.31.42E-805534gtex_brain_putamen_basal
rs74341673100162881LNP1ENSG00000206535.34.38E-7014340gtex_brain_putamen_basal
rs117120773100164261LNP1ENSG00000206535.34.12E-7015720gtex_brain_putamen_basal
rs98209733100164750LNP1ENSG00000206535.35.736E-7016209gtex_brain_putamen_basal
rs761177303100165160LNP1ENSG00000206535.33.978E-7016619gtex_brain_putamen_basal
rs49280713100167796LNP1ENSG00000206535.31.612E-7019255gtex_brain_putamen_basal
rs92900593100169270LNP1ENSG00000206535.33.583E-7020729gtex_brain_putamen_basal
rs67973973100170825LNP1ENSG00000206535.31.344E-7022284gtex_brain_putamen_basal
rs576770483100171766LNP1ENSG00000206535.31.333E-7023225gtex_brain_putamen_basal
rs74342443100172198LNP1ENSG00000206535.31.344E-7023657gtex_brain_putamen_basal
rs98403703100173525LNP1ENSG00000206535.31.344E-7024984gtex_brain_putamen_basal
rs11320223100174722LNP1ENSG00000206535.31.344E-7026181gtex_brain_putamen_basal
rs671517803100175801LNP1ENSG00000206535.31.165E-8027260gtex_brain_putamen_basal
rs76434423100176360LNP1ENSG00000206535.33.953E-8027819gtex_brain_putamen_basal
rs49280503100178459LNP1ENSG00000206535.32.015E-7029918gtex_brain_putamen_basal
rs92900613100181868LNP1ENSG00000206535.33.953E-8033327gtex_brain_putamen_basal
rs98722273100186245LNP1ENSG00000206535.31.007E-6037704gtex_brain_putamen_basal
rs3978745733100187582LNP1ENSG00000206535.31.983E-6039041gtex_brain_putamen_basal
rs49280743100188071LNP1ENSG00000206535.34.455E-7039530gtex_brain_putamen_basal
rs3980823043100188360LNP1ENSG00000206535.33.131E-6039819gtex_brain_putamen_basal

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
CHEMNITZ RESPONSE TO PROSTAGLANDIN E2 DN 391222All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP 201127All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS UP 344180All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS DN 411249All SZGR 2.0 genes in this pathway
MOLENAAR TARGETS OF CCND1 AND CDK4 UP 6748All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE M G1 14895All SZGR 2.0 genes in this pathway