Summary ?
GeneID8929
SymbolPHOX2B
SynonymsNBLST2|NBPhox|PMX2B
Descriptionpaired like homeobox 2b
ReferenceMIM:603851|HGNC:HGNC:9143|Ensembl:ENSG00000109132|HPRD:09157|Vega:OTTHUMG00000099379
Gene typeprotein-coding
Map location4p12
Pascal p-value0.376
Fetal beta0.195

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
AssociationA combined odds ratio method (Sun et al. 2008), association studies1Link to SZGene
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 1 

Section I. Genetics and epigenetics annotation


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
FAM96B0.920.91
EXOSC40.910.91
PSMB30.910.89
EXOSC50.910.90
C12orf100.900.89
NOSIP0.900.88
SF3B50.900.88
PSMB40.890.88
ANAPC110.890.85
CUEDC20.890.88
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.26-0.54-0.57
AF347015.18-0.50-0.56
AF347015.8-0.50-0.50
AF347015.15-0.50-0.52
MT-ATP8-0.49-0.54
AF347015.2-0.49-0.51
MT-CYB-0.48-0.51
AF347015.27-0.48-0.52
AF347015.33-0.48-0.51
ANKRD18B-0.45-0.56

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003700transcription factor activityTAS10395798 
GO:0003712transcription cofactor activityTAS10395798 
GO:0043565sequence-specific DNA bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007399nervous system developmentTASneurite (GO term level: 5)10395798 
GO:0006355regulation of transcription, DNA-dependentIEA-
GO:0048468cell developmentIEA-
GO:0007275multicellular organismal developmentIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
LEE NEURAL CREST STEM CELL UP 14699All SZGR 2.0 genes in this pathway
CONCANNON APOPTOSIS BY EPOXOMICIN DN 172112All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER DN 203134All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442892All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038678All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062725All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118744All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652441All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP 398262All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL RUNX1 96All SZGR 2.0 genes in this pathway
XU GH1 EXOGENOUS TARGETS DN 12069All SZGR 2.0 genes in this pathway
GRESHOCK CANCER COPY NUMBER UP 323240All SZGR 2.0 genes in this pathway
MIKKELSEN PARTIALLY REPROGRAMMED TO PLURIPOTENCY 106All SZGR 2.0 genes in this pathway
MIKKELSEN IPS WITH HCP H3K27ME3 10276All SZGR 2.0 genes in this pathway
MIKKELSEN ES HCP WITH H3K27ME3 4130All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590403All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 DN 448282All SZGR 2.0 genes in this pathway
SERVITJA ISLET HNF1A TARGETS UP 163111All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-125/351323329m8hsa-miR-125bbrainUCCCUGAGACCCUAACUUGUGA
hsa-miR-125abrainUCCCUGAGACCCUUUAACCUGUG
miR-13810021008m8hsa-miR-138brainAGCUGGUGUUGUGAAUC
miR-146144414501Ahsa-miR-146aUGAGAACUGAAUUCCAUGGGUU
hsa-miR-146bbrainUGAGAACUGAAUUCCAUAGGCU
miR-18112851291m8hsa-miR-181abrainAACAUUCAACGCUGUCGGUGAGU
hsa-miR-181bSZAACAUUCAUUGCUGUCGGUGGG
hsa-miR-181cbrainAACAUUCAACCUGUCGGUGAGU
hsa-miR-181dbrainAACAUUCAUUGUUGUCGGUGGGUU
miR-32010051011m8hsa-miR-320AAAAGCUGGGUUGAGAGGGCGAA
miR-494158415911A,m8hsa-miR-494brainUGAAACAUACACGGGAAACCUCUU
miR-495150515111Ahsa-miR-495brainAAACAAACAUGGUGCACUUCUUU
miR-50015141520m8hsa-miR-500AUGCACCUGGGCAAGGAUUCUG
miR-54312861292m8hsa-miR-543AAACAUUCGCGGUGCACUUCU
miR-799710031Ahsa-miR-7SZUGGAAGACUAGUGAUUUUGUUG