Table 9. Differentially expressed proteins and phosphoproteins, LPS-treated microglia.
Shows the top up and downregulated proteins and phosphoproteins in baseline, untreated microglia. See Additional file 7: Table S5 and Additional file 8: Table S6 for all proteins and phosphoproteins.
| Gene | Up-regulated proteins PPM1D+/tr LPS microglia | Score | Gene | Down-regulated proteins PPM1D+/tr LPS microglia | Score |
|---|---|---|---|---|---|
| UHRF1BP1 | UHRF1-binding protein 1 | 60.28 | PI4KA | Phosphatidylinositol 4-kinase alpha | −29.3389 |
| GBA1 | Lysosomal acid glucosylceramidase | 55.35 | RPL18 | 60S ribosomal protein L18 | −29.6675 |
| ETNK1 | Ethanolamine kinase 1 | 37.18 | DDX59 | Probable ATP-dependent RNA helicase DDX59 | −31.5494 |
| PYGL | Glycogen phosphorylase, liver form | 34.4 | SPRYD7 | SPRY domain-containing protein 7 | −32.4876 |
| UGP2 | UTP--glucose-1-phosphate uridylyltransferase | 32.4 | EPS8 | Epidermal growth factor receptor kinase substrate 8 | −33.9319 |
| RAB11A | Ras-related protein Rab-11A | 30.74 | CBR3 | Carbonyl reductase [NADPH] | −34.3485 |
| CSK | Tyrosine-protein kinase CSK | 29.54 | HSPBAP1 | HSPB1-associated protein 1 | −37.1573 |
| SLC25A35 | Solute carrier family 25 member 35 | 27.87 | MTA1 | Metastasis-associated protein MTA1 | −37.6405 |
| PAFAH2 | Platelet-activating factor acetylhydrolase 2, cytoplasmic | 27.23 | CPM | Carboxypeptidase M | −39.6778 |
| FGG | Fibrinogen gamma chain | 26.9 | KCTD5 | BTB/POZ domain-containing protein KCTD5 | −42.0408 |
| LAMB2 | Laminin subunit beta-2 | 25.49 | NUBP2 | Cytosolic Fe-S cluster assembly factor NUBP2 | −42.8254 |
| ZBTB33 | Transcriptional regulator Kaiso | 24.49 | TAX1BP3 | Tax1-binding protein 3 | −43.4695 |
| LYPLA2 | Acyl-protein thioesterase 2 | 22.79 | HSPB11 | Intraflagellar transport protein 25 homolog | −47.3325 |
| STARD3 | StAR-related lipid transfer protein 3 | 22.75 | HAS1 | Hyaluronan synthase 1 OS=Homo sapiens | −50.9275 |
| SIAE | Sialate O-acetylesterase | 22.49 | UBR4 | E3 ubiquitin-protein ligase UBR4 | −65.0923 |
| Gene | Up-reg. phosphoproteins PPM1D+/tr LPS microglia | Score | Gene | Down-reg. phosphoproteins PPM1D+/tr LPS microglia | Score |
| UBR4 | E3 ubiquitin-protein ligase | 62.42 | IRAG2 | Inositol 1,4,5-triphosphate receptor associated 2 | −37.17 |
| UBR4 | E3 ubiquitin-protein ligase | 47.723 | HSP90AB1 | Heat shock protein HSP 90-beta | −39.11 |
| IL16 | Pro-interleukin-16 | 38.099 | KIAA0930 | Uncharacterized protein KIAA0930 | −39.54 |
| LBR | Delta(14)-sterol reductase | 32.377 | BCLAF1 | Bcl-2-associated transcription factor 1 | −43.15 |
| TBC1D10B | TBC1 domain family member 10B | 30.032 | IRF2BP1 | Interferon regulatory factor 2-binding protein 1 | −45.51 |
| UBR4 | E3 ubiquitin-protein ligase | 29.951 | RPL23A | 60S ribosomal protein L23a | −46.79 |
| UBR4 | E3 ubiquitin-protein ligase UBR4 | 28.137 | PFKFB3 | 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 | −48.40 |
| PI4KA | Phosphatidylinositol 4-kinase alpha | 26.685 | PRRC2C | Protein PRRC2C | −52.17 |
| LTB4R | Leukotriene B4 receptor 1 | 23.842 | PRPF4B | Serine/threonine-protein kinase PRP4 homolog | −53.02 |
| PLXNC1 | Plexin-C1 | 21.067 | DVL3 | Segment polarity protein dishevelled homolog DVL-3 | −53.07 |
| SMARCA2 | Probable global transcription activator SNF2L2 | 20.538 | FNBP1 | Formin-binding protein 1 | −58.01 |
| RBM33 | RNA-binding protein 33 | 19.82 | LARP7 | La-related protein 7 | −58.89 |
| SIPA1L1 | Signal-induced proliferation-associated 1-like protein 1 | 17.973 | RBM25 | RNA-binding protein 25 | −63.53 |
| PLXNC1 | Plexin-C1 | 17.862 | HNRNPA1 | Heterogeneous nuclear ribonucleoprotein A1 | −64.67 |
| HNRNPU | Heterogeneous nuclear ribonucleoprotein U | 17.634 | RASAL3 | RAS protein activator like-3 | −65.28 |