Gene Page: PLXNA1

Summary ?
GeneID5361
SymbolPLXNA1
SynonymsNOV|NOVP|PLEXIN-A1|PLXN1
Descriptionplexin A1
ReferenceMIM:601055|HGNC:HGNC:9099|Ensembl:ENSG00000114554|HPRD:11868|Vega:OTTHUMG00000044222
Gene typeprotein-coding
Map location3q21.3
Pascal p-value0.119
Fetal beta0.665
DMG1 (# studies)
eGeneCerebellum
Myers' cis & trans
Meta
SupportG2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
G2Cdb.humanPSD
G2Cdb.humanPSP
CompositeSet
Darnell FMRP targets
Ascano FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 3
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
PLXNA1chr3126741090ATNM_032242p.1401M>LmissenseSchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg208996253126721131PLXNA19.59E-50.3810.027DMG:Wockner_2014
cg110997063126732969PLXNA11.584E-40.4890.032DMG:Wockner_2014
cg181091863126731031PLXNA11.97E-40.3730.035DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs17518444chr818471417PLXNA153610.15trans
rs1111480chr1652521355PLXNA153610.18trans

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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
GenePearson's Correlation Spearman's Correlation
GNL20.910.90
RFC40.910.92
GNL30.900.92
NOP580.900.90
CNOT100.890.92
NAE10.890.91
GPBP10.890.88
SNW10.890.89
UTP60.890.90
DDX500.890.87
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MT-CO2-0.79-0.84
MT-CYB-0.79-0.86
AF347015.31-0.79-0.84
AF347015.27-0.78-0.84
AF347015.33-0.78-0.84
AF347015.15-0.78-0.86
AF347015.8-0.77-0.85
AF347015.2-0.76-0.84
AF347015.26-0.74-0.85
AIFM3-0.72-0.77

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG AXON GUIDANCE 129103All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY 396292All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE 251188All SZGR 2.0 genes in this pathway
REACTOME CRMPS IN SEMA3A SIGNALING 1414All SZGR 2.0 genes in this pathway
REACTOME OTHER SEMAPHORIN INTERACTIONS 1514All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PAK DEPENDENT AXON REPULSION 1514All SZGR 2.0 genes in this pathway
REACTOME SEMAPHORIN INTERACTIONS 6853All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PLEXIN REPULSION SIGNALING BY INHIBITING INTEGRIN ADHESION 139All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 2HR DN 8853All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR DN 167100All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP 557331All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN 1375806All SZGR 2.0 genes in this pathway
OXFORD RALA OR RALB TARGETS UP 4823All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 UP 209139All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A UP 7749All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 AND HIF1A DN 10371All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
LIAO METASTASIS 539324All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA LB UP 4828All SZGR 2.0 genes in this pathway
HADDAD B LYMPHOCYTE PROGENITOR 293193All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI UP 412249All SZGR 2.0 genes in this pathway
MOREAUX B LYMPHOCYTE MATURATION BY TACI UP 9258All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2 VIA ERCC6 179All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2 7142All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871505All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 UP 338225All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF UP 418282All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 DN 245150All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668419All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS UP 221135All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2 VIA ERCC6 DN 4631All SZGR 2.0 genes in this pathway
WANG RESPONSE TO GSK3 INHIBITOR SB216763 DN 374217All SZGR 2.0 genes in this pathway
MIYAGAWA TARGETS OF EWSR1 ETS FUSIONS DN 229135All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG BOUND 8D 658397All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE NOT VIA P38 337236All SZGR 2.0 genes in this pathway
NABA ECM AFFILIATED 17189All SZGR 2.0 genes in this pathway
NABA MATRISOME ASSOCIATED 753411All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028559All SZGR 2.0 genes in this pathway