Table 1 |
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Top 25 up- and downregulated genes for the microarray comparison of notochordal cell (NC)-rich nucleus pulposus (NP) (reference) vs. chondrocyte-like cell-(CLC)-rich NP in chondrodystrophic dogs |
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Chondrodystrophic dogs: NC-rich NP vs. CLC-rich NP |
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Total upregulated genes: 1.178 |
Total downregulated genes: 1,741 |
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Description |
GO term: biological Process |
N-fold change |
P-value |
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Carboxypeptidase E |
Protein modification process |
8.65 |
8.65E-05 |
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Transferrin |
Transferrin transport |
8.58 |
1.56E-02 |
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Ceruloplasmin (ferroxidase) |
Cellular iron ion homeostasis |
7.34 |
2.02E-03 |
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Frizzled-related protein |
Negative regulation of canonical Wnt receptor signaling pathway |
7.26 |
4.24E-03 |
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Decorin |
Peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan |
7.11 |
2.00E-02 |
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Cartilage oligomeric matrix protein |
Anti-apoptosis |
7.08 |
6.69E-05 |
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Serglycin |
Negative regulation of bone mineralization |
6.97 |
9.64E-03 |
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Lumican |
Collagen fibril organization |
6.88 |
1.39E-02 |
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Not annotated |
Not annotated |
6.66 |
1.15E-02 |
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Metallothionein 2A |
Cellular response to erythropoietin |
6.60 |
5.33E-03 |
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RAN binding protein 3-like |
Intracellular transport |
6.54 |
4.71E-02 |
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Retinol binding protein 4, plasma |
Protein complex assembly |
6.40 |
6.79E-04 |
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Cysteine dioxygenase, type I |
Response to glucagon stimulus |
6.30 |
1.36E-02 |
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Adenylate cyclase 2 |
Activation of adenylate cyclase activity by G-protein signaling pathway |
5.97 |
3.94E-04 |
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Tetraspanin 13 |
Not available |
5.88 |
1.95E-02 |
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Microfibrillar associated protein 5 |
Not available |
5.75 |
1.17E-04 |
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Proteoglycan 4 |
Cell proliferation |
5.61 |
3.00E-03 |
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S100 calcium binding protein A12 |
Inflammatory response |
5.59 |
1.15E-02 |
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Phosphotyrosine interaction domain containing 1 |
Not available |
5.57 |
8.41E-05 |
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Nephronectin |
Cell differentiation |
5.54 |
2.76E-04 |
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Lysozyme |
Cell wall macromolecule catabolic process |
5.47 |
2.42E-02 |
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SPARC-like 1 (hevin) |
Signal transduction |
5.34 |
2.85E-02 |
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Glycoprotein 25L |
Not available |
5.27 |
5.84E-04 |
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Serpin peptidase inhibitor, clade G (C1 inhibitor), member 1 |
Regulation of proteolysis |
5.08 |
6.92E-04 |
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Sphingomyelin phosphodiesterase, acid-like 3A |
Sphingomyelin catabolic process |
5.01 |
1.16E-02 |
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Keratin 18 |
Golgi to plasma membrane CFTR protein transport |
-12.93 |
1.44E-03 |
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tRNA-yW synthesizing protein 3 homolog |
tRNA processing |
-7.83 |
9.45E-04 |
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A kinase (PRKA) anchor protein 12 |
Signal transduction |
-7.69 |
7.56E-03 |
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Phospholipase C-like 1 |
Lipid metabolic process |
-7.40 |
9.48E-03 |
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Desmocollin 3 |
Cell adhesion |
-7.05 |
1.40E-03 |
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Myosin, light chain 9, regulatory |
Regulation of muscle contraction |
-6.84 |
1.64E-02 |
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Mitochondrial ribosomal protein S27 |
Not available |
-6.76 |
4.96E-04 |
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Ectonucleotide pyrophosphatase/phosphodiesterase 2 |
Regulation of cell migration |
-6.41 |
9.38E-03 |
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Keratin 19 |
Cell differentiation involved in embryonic placenta development |
-6.32 |
6.00E-03 |
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Plakophilin 2 |
Carbohydrate metabolic process |
-6.13 |
6.02E-04 |
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Tetraspanin 7 |
Interspecies interaction between organisms |
-6.01 |
3.00E-03 |
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Keratin 8 |
Cytoskeleton organization |
-5.94 |
2.60E-02 |
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Nucleosome assembly protein 1-like 1 |
DNA replication |
-5.92 |
1.40E-03 |
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RAB20, member RAS oncogene family |
Small GTPase mediated signal transduction |
-5.79 |
2.91E-03 |
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Caldesmon 1 |
Positive regulation of protein binding |
-5.68 |
3.60E-03 |
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Potassium voltage-gated channel, delayed-rectifier, subfamily S, member 3 |
Synaptic transmission |
-5.64 |
4.46E-03 |
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Apelin |
Positive regulation of phosphorylation |
-5.59 |
7.66E-03 |
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Sorbin and SH3 domain containing 2 |
Biological process |
-5.42 |
3.39E-03 |
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Phosphatidylcholine transfer protein |
Cholesterol metabolic process |
-5.37 |
1.30E-03 |
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Kv channel interacting protein 1 |
Synaptic transmission |
-5.14 |
< 1.0E-06 |
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Carbonic anhydrase II |
Carbon utilization |
-5.07 |
2.57E-02 |
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Thy-1 cell surface antigen |
Cytoskeleton organization |
-4.74 |
1.10E-02 |
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RAB38, member RAS oncogene family |
GTP catabolic process |
-4.71 |
5.79E-04 |
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Sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C |
Neural tube development |
-4.58 |
1.01E-04 |
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Desmocollin 2 |
Cell adhesion |
-4.48 |
9.91E-03 |
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This specific comparison was chosen to illustrate the overall trend in gene regulations observed in early IVD degeneration. For the top 50 up- and downregulations of all performed microarray analyses, see Additional file 4. For brevity, only one Gene Ontology (GO)-term is given for each gene (obtained with bioDBnet [97]). |
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Smolders et al. Arthritis Research & Therapy 2013 15:R23 doi:10.1186/ar4157 |
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