Gene Page:PFDN5
Summary?
| GeneID | 5204 |
| Symbol | PFDN5 |
| Synonyms | MM-1|MM1|PFD5 |
| Description | prefoldin subunit 5 |
| Reference | MIM:604899|HGNC:HGNC:8869|Ensembl:ENSG00000123349|Vega:OTTHUMG00000169675 |
| Gene type | protein-coding |
| Map location | 12q12 |
| Pascal p-value | 0.014 |
| Sherlock p-value | 0.225 |
| Fetal beta | 0.424 |
| DMG | 1 (# studies) |
| eGene | 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
Differentially methylated gene| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg10107186 | 12 | 53689090 | PFDN5 | 6.77E-9 | -0.021 | 3.47E-6 | DMG:Jaffe_2016 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs1454381 | chr2 | 52918673 | PFDN5 | 5204 | 0.1 | trans | ||
| rs17799628 | chr9 | 106442995 | PFDN5 | 5204 | 0.06 | 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 |
| HTRA1 | 0.83 | 0.85 |
| GRAMD3 | 0.83 | 0.82 |
| STOX1 | 0.82 | 0.82 |
| HADHB | 0.82 | 0.83 |
| GLUD2 | 0.81 | 0.87 |
| DTNA | 0.81 | 0.83 |
| HIBADH | 0.81 | 0.83 |
| FAM107A | 0.81 | 0.83 |
| ADD3 | 0.81 | 0.85 |
| GATM | 0.81 | 0.86 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| KIAA1949 | -0.54 | -0.35 |
| RTF1 | -0.54 | -0.52 |
| AC004017.1 | -0.54 | -0.43 |
| ZNF551 | -0.54 | -0.43 |
| MPP3 | -0.53 | -0.42 |
| C21orf30 | -0.53 | -0.43 |
| CHD3 | -0.53 | -0.41 |
| AL033532.1 | -0.53 | -0.41 |
| DACT1 | -0.53 | -0.41 |
| MARCH4 | -0.52 | -0.42 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| PID P73PATHWAY | 79 | 59 | All SZGR 2.0 genes in this pathway |
| REACTOME PREFOLDIN MEDIATED TRANSFER OF SUBSTRATE TO CCT TRIC | 28 | 15 | All SZGR 2.0 genes in this pathway |
| REACTOME PROTEIN FOLDING | 53 | 30 | All SZGR 2.0 genes in this pathway |
| REACTOME METABOLISM OF PROTEINS | 518 | 242 | All SZGR 2.0 genes in this pathway |
| ENK UV RESPONSE KERATINOCYTE UP | 530 | 342 | All SZGR 2.0 genes in this pathway |
| GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP | 552 | 347 | All SZGR 2.0 genes in this pathway |
| GRAESSMANN RESPONSE TO MC AND SERUM DEPRIVATION UP | 211 | 136 | All SZGR 2.0 genes in this pathway |
| AMUNDSON RESPONSE TO ARSENITE | 217 | 143 | All SZGR 2.0 genes in this pathway |
| STARK PREFRONTAL CORTEX 22Q11 DELETION DN | 517 | 309 | All SZGR 2.0 genes in this pathway |
| NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE DN | 121 | 79 | All SZGR 2.0 genes in this pathway |
| MUNSHI MULTIPLE MYELOMA UP | 81 | 52 | All SZGR 2.0 genes in this pathway |
| TAKAO RESPONSE TO UVB RADIATION UP | 86 | 55 | All SZGR 2.0 genes in this pathway |
| NATSUME RESPONSE TO INTERFERON BETA UP | 71 | 49 | All SZGR 2.0 genes in this pathway |
| MURAKAMI UV RESPONSE 6HR UP | 37 | 31 | All SZGR 2.0 genes in this pathway |
| KYNG RESPONSE TO H2O2 | 71 | 42 | All SZGR 2.0 genes in this pathway |
| MARTINEZ RB1 TARGETS UP | 673 | 430 | All SZGR 2.0 genes in this pathway |
| MARTINEZ TP53 TARGETS UP | 602 | 364 | All SZGR 2.0 genes in this pathway |
| MARTINEZ RB1 AND TP53 TARGETS UP | 601 | 369 | All SZGR 2.0 genes in this pathway |
| TOOKER GEMCITABINE RESISTANCE UP | 79 | 40 | All SZGR 2.0 genes in this pathway |
| AGUIRRE PANCREATIC CANCER COPY NUMBER DN | 238 | 145 | All SZGR 2.0 genes in this pathway |
| HSIAO HOUSEKEEPING GENES | 389 | 245 | All SZGR 2.0 genes in this pathway |
| MURAKAMI UV RESPONSE 1HR UP | 17 | 10 | All SZGR 2.0 genes in this pathway |
| 金所有障碍和少突细胞数量R UP | 756 | 494 | All SZGR 2.0 genes in this pathway |
| KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP | 682 | 440 | All SZGR 2.0 genes in this pathway |