Table 4.
List of transcripts differentially expressed in both aged Tg4–42 and 5XFAD mice.
| ID | Gene name | Gene description | GO biological process annotation/functions | log2 Fold change Tg4–42 | Adjusted p-value Tg4–42 | log2 Fold change 5xFAD | Adjusted p-value 5xFAD |
|---|---|---|---|---|---|---|---|
| MGI:103249 | Calm3 | Calmodulin 3 | Ion channel binding | 1.90 | 5.49E-13 | 1.00 | 1.28E-03 |
| Calcium ion binding | |||||||
| G-protein coupled receptor protein signaling pathway | |||||||
| MGI:2446216 | Fbxo2 | F-box protein 2 | Ubiquitin-protein ligase activity | 1.40 | 6.60E-04 | 1.24 | 1.73E-03 |
| Glycoprotein binding | |||||||
| Beta-amyloid binding | |||||||
| Carbohydrate binding | |||||||
| MGI:107671 | Gpm6a | Neuronal membrane glycoprotein M6-a | Calcium channel activity involved in neuronal differentiation | 0.90 | 1.77E-02 | 0.90 | 5.39E-03 |
| Role in neuronal plasticity | |||||||
| MGI:95697 | Gfap | Glial fibrillary acidic protein | Integrin binding | 0.88 | 3.76E-02 | 3.64 | 2.36E-42 |
| Kinase binding | |||||||
| Structural constituent of cytoskeleton | |||||||
| MGI:1860283 | Ubqln2 | Ubiquilin 2 | Ubiquitin binding | −0.92 | 4.35E-02 | −1.27 | 8.71E-05 |
| Protein modification | |||||||
| Proteolysis | |||||||
| MGI:97495 | Pbx1 | Pre-B-cell leukemia transcription factor 1/pre-B-cell leukemia homeobox 1 | Transcription factor activity | −0.92 | 3.79E-02 | −0.86 | 2.85E-02 |
| Protein heterodimerization activity involved in the regulation of osteogenesis required for skeletal patterning and programing | |||||||
| MGI:3647820 | Gm15800 | Predicted gene 15800 | Ubiquitin-protein ligase activity | −0.96 | 1.04E-02 | −0.83 | 1.84E-02 |
| MGI:96669 | Kcnc3 | Potassium voltage-gated channel, shaw-related sub-family, member 3 | Voltage-gated potassium channel activity | −0.99 | 3.47E-02 | −1.04 | 6.53E-03 |
| Delayed rectifier potassium channel activity | |||||||
| MGI:96828 | Lrp1 | Low density lipoprotein receptor-related protein 1 | Endocytic receptor or receptor activity | −1.00 | 5.80E-03 | −0.83 | 1.77E-02 |
| Lipoprotein binding | |||||||
| Calcium ion binding | |||||||
| Apolipoprotein binding | |||||||
| Beta-amyloid clearance | |||||||
| Apoptotic cell clearance | |||||||
| MGI:2183691 | Nav2 | Neuron navigator 2 | Heparin binding | −1.04 | 1.29E-02 | −0.89 | 2.33E-02 |
| Helicase activity | |||||||
| ATP-binding | |||||||
| Role in neuronal development | |||||||
| MGI:1890563 | Wasf1 | WAS protein family, member 1 | Actin binding | −1.05 | 1.99E-02 | −0.95 | 2.11E-02 |
| MGI:96995 | Mll1 | Lysine (K)-specific methyltransferase 2A | Calcium ion binding | −1.05 | 4.97E-03 | −0.81 | 3.37E-02 |
| Zinc ion binding | |||||||
| Chromatin binding | |||||||
| Histone methyltransferase activity | |||||||
| Regulation of transcription | |||||||
| MGI:2446229 | Tet3 | Tet methylcytosine dioxygenase 3 | Methylcytosine dioxygenase activity | −1.05 | 1.98E-02 | −1.05 | 6.56E-03 |
| Oxidoreductase activity | |||||||
| Metal ion binding | |||||||
| Plays role in the DNA methylation process | |||||||
| MGI:99948 | Zfhx3 | Zinc finger homeobox 3 | GTP binding | −1.06 | 3.98E-02 | −1.12 | 7.24E-03 |
| Sequence-specific DNA binding transcription factor activity | |||||||
| Zinc ion binding | |||||||
| MGI:1347464 | Foxg1 | Forkhead box G1 | Sequence-specific DNA binding | −1.06 | 4.30E-02 | −1.11 | 9.22E-03 |
| Negative regulation of neuron differentiation | |||||||
| Regulation of transcription | |||||||
| Brain development | |||||||
| Forebrain marker (Yahata et al., 2011 no. 296) | |||||||
| MGI:1919847 | Auts2 | Autism susceptibility candidate 2 | Unknown | −1.07 | 2.00E-02 | −1.05 | 7.45E-03 |
| MGI:1915467 | Prrc2a | Proline-rich coiled-coil 2A | Unknown | −1.07 | 4.33E-03 | −0.85 | 2.24E-02 |
| MGI:1917685 | Inf2 | Inverted formin, FH2 and WH2 domain containing | Rho GTPase binding | −1.07 | 7.70E-03 | −0.87 | 2.60E-02 |
| actin binding | |||||||
| MGI:2158663 | Inpp5j | Inositol polyphosphate 5-phosphatase J | SH3 domain binding | −1.12 | 2.43E-02 | −1.78 | 6.55E-07 |
| Hydrolase activity | |||||||
| Phosphatase activity | |||||||
| MGI:2682319 | Mll2 | Lysine (K)-specific methyltransferase 2D | Histone methyltransferase | −1.12 | 1.90E-03 | −1.05 | 1.48E-03 |
| MGI:3026647 | Flrt1 | Fibronectin leucine rich transmembrane protein 1 | Receptor signaling protein activity | −1.18 | 1.53E-02 | −1.25 | 1.89E-03 |
| MGI:1888520 | Brd4 | Bromodomain containing 4 | DNA binding | −1.19 | 4.97E-03 | −1.05 | 7.64E-03 |
| MGI:1916205 | Srrm4 | Serine/arginine repetitive matrix 4 | mRNA binding | −1.22 | 2.43E-02 | −1.25 | 6.20E-03 |
| Promotes alternative splicing and inclusion of neural-specific exons in target mRNAs | |||||||
| MGI:1926106 | Fam163b | Family with sequence similarity 163, member B | Unknown | −1.27 | 9.85E-03 | −1.60 | 2.91E-05 |
| MGI:2685951 | Myo16 | Myosin XVI | Motor activity | −1.27 | 1.57E-03 | −1.09 | 4.62E-03 |
| ATP-binding | |||||||
| Protein phosphatase binding | |||||||
| MGI:1923304 | Prrc2b | Proline-rich coiled-coil 2B | Unknown | −1.30 | 2.37E-05 | −1.11 | 2.28E-04 |
| MGI:1923206 | Srrm2 | Serine/arginine repetitive matrix 2 | C2H2 zinc finger domain binding | −1.33 | 8.92E-06 | −1.04 | 7.25E-04 |
| RNA binding involved in pre-mRNA splicing | |||||||
| MGI:1337080 | Ncor2 | Nuclear receptor co-repressor 2 | Chromatin binding | −1.38 | 5.62E-05 | −1.39 | 1.21E-05 |
| Regulation of transcription | |||||||
| Transcription co-repressor activity | |||||||
| Notch binding | |||||||
| MGI:1306776 | Mtap1a | Microtubule-associated protein 1 A | Structural molecule activity | −1.44 | 3.82E-07 | −1.62 | 9.68E-10 |
| Microtubule assembly | |||||||
| Perception of sound | |||||||
| MGI:104725 | Atn1 | Atrophin 1 | Toxin receptor binding | −1.44 | 2.15E-04 | −1.32 | 3.38E-04 |
| Transcription co-repressor activity | |||||||
| MGI:104296 | Nova2 | Neuro-oncological ventral antigen 2 | RNA binding | −1.49 | 4.27E-05 | −1.64 | 7.71E-07 |
| MGI:3613677 | Shank1 | SH3 and multiple ankyrin repeat domains 1 | SH3 domain binding | −1.57 | 9.26E-08 | −1.53 | 7.43E-08 |
| Identical protein binding | |||||||
| Synapse maturation | |||||||
| MGI:2679002 | Prr12 | Proline-rich 12 | DNA binding | −1.59 | 3.68E-04 | −1.68 | 2.80E-05 |
| MGI:2143886 | Dot1l | DOT1-like histone H3 methyltransferase | Transcription factor binding | −1.63 | 3.29E-05 | −1.06 | 1.72E-02 |
| DNA binding | |||||||
| Histone-lysine N-methyltransferase activity | |||||||
| MGI:88107 | Atp1a3 | Sodium/potassium-transporting ATPase subunit alpha-3 | Sodium:potassium-exchanging ATPase activity | −1.73 | 1.31E-10 | −1.90 | 1.70E-13 |
| ATP-binding | |||||||
| Metal ion binding | |||||||
| Hydrolase activity | |||||||
| MGI:98974 | Xist | Inactive × specific transcripts | Non-protein coding | −1.73 | 1.31E-10 | −0.90 | 5.70E-03 |