Gene Page: PEX2
Summary ?
| GeneID | 5828 |
| Symbol | PEX2 |
| Synonyms | PAF1|PBD5A|PBD5B|PMP3|PMP35|PXMP3|RNF72|ZWS3 |
| Description | peroxisomal biogenesis factor 2 |
| Reference | MIM:170993|HGNC:HGNC:9717|Ensembl:ENSG00000164751|HPRD:01367|Vega:OTTHUMG00000164530 |
| Gene type | protein-coding |
| Map location | 8q21.1 |
| Pascal p-value | 0.179 |
| Sherlock p-value | 0.523 |
| Fetal beta | -0.551 |
| DMG | 1 (# studies) |
| eGene | Cerebellum Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:Jaffe_2016 | Genome-wide DNA methylation analysis | This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. | 1 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg25202404 | 8 | 77912832 | PEX2 | 2.32E-10 | -0.012 | 6.06E-7 | DMG:Jaffe_2016 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs6910399 | chr6 | 142597145 | PEX2 | 5828 | 0.01 | trans |
Section II. Transcriptome annotation
General gene expression (GTEx)
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 | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| CNDP1 | 0.94 | 0.70 |
| GPR37 | 0.89 | 0.83 |
| FOLH1 | 0.88 | 0.71 |
| SLC31A2 | 0.88 | 0.78 |
| TMEM144 | 0.88 | 0.68 |
| PIP5K2A | 0.88 | 0.79 |
| SLC44A1 | 0.87 | 0.79 |
| S1PR5 | 0.87 | 0.72 |
| CLDND1 | 0.87 | 0.81 |
| ENPP2 | 0.87 | 0.67 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| TBC1D10A | -0.43 | -0.36 |
| MMP25 | -0.43 | -0.45 |
| WDR86 | -0.41 | -0.44 |
| CCDC28B | -0.40 | -0.52 |
| PBX4 | -0.40 | -0.39 |
| SPINK8 | -0.39 | -0.49 |
| AC006276.2 | -0.39 | -0.47 |
| BCL7C | -0.39 | -0.49 |
| AC009133.1 | -0.39 | -0.34 |
| NKIRAS2 | -0.39 | -0.29 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005515 | protein binding | IPI | 10837480 | |
| GO:0008270 | zinc ion binding | IEA | - | |
| GO:0046872 | metal ion binding | IEA | - | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0001764 | neuron migration | IEA | neuron (GO term level: 8) | - |
| GO:0007399 | nervous system development | IEA | neurite (GO term level: 5) | - |
| GO:0007031 | peroxisome organization | IMP | 1546315 | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005777 | peroxisome | IEA | - | |
| GO:0005778 | peroxisomal membrane | IEA | - | |
| GO:0005779 | integral to peroxisomal membrane | IMP | 12751901 | |
| GO:0016020 | membrane | IEA | - | |
| GO:0016021 | integral to membrane | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG PEROXISOME | 78 | 47 | All SZGR 2.0 genes in this pathway |
| ONKEN UVEAL MELANOMA UP | 783 | 507 | All SZGR 2.0 genes in this pathway |
| CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN | 663 | 425 | All SZGR 2.0 genes in this pathway |
| DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP | 1382 | 904 | All SZGR 2.0 genes in this pathway |
| SENESE HDAC3 TARGETS DN | 536 | 332 | All SZGR 2.0 genes in this pathway |
| KINSEY TARGETS OF EWSR1 FLII FUSION UP | 1278 | 748 | All SZGR 2.0 genes in this pathway |
| SCHLOSSER SERUM RESPONSE DN | 712 | 443 | All SZGR 2.0 genes in this pathway |
| PATIL LIVER CANCER | 747 | 453 | All SZGR 2.0 genes in this pathway |
| BENPORATH NANOG TARGETS | 988 | 594 | All SZGR 2.0 genes in this pathway |
| NIKOLSKY BREAST CANCER 8Q12 Q22 AMPLICON | 132 | 82 | All SZGR 2.0 genes in this pathway |
| SMITH LIVER CANCER | 45 | 27 | All SZGR 2.0 genes in this pathway |
| LEE AGING MUSCLE DN | 46 | 29 | All SZGR 2.0 genes in this pathway |
| ZHENG RESPONSE TO ARSENITE UP | 18 | 14 | All SZGR 2.0 genes in this pathway |
| ACEVEDO LIVER CANCER UP | 973 | 570 | All SZGR 2.0 genes in this pathway |
| ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP | 863 | 514 | All SZGR 2.0 genes in this pathway |
| ELLWOOD MYC TARGETS DN | 40 | 27 | All SZGR 2.0 genes in this pathway |
| ROME INSULIN TARGETS IN MUSCLE UP | 442 | 263 | All SZGR 2.0 genes in this pathway |
| YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 10 | 69 | 38 | All SZGR 2.0 genes in this pathway |
| BAE BRCA1 TARGETS DN | 32 | 27 | All SZGR 2.0 genes in this pathway |
| MIYAGAWA TARGETS OF EWSR1 ETS FUSIONS DN | 229 | 135 | All SZGR 2.0 genes in this pathway |
| WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D | 882 | 506 | All SZGR 2.0 genes in this pathway |
| DELACROIX RARG BOUND MEF | 367 | 231 | All SZGR 2.0 genes in this pathway |