Table 2.

Differentially regulated genes in TNF-Tg vs WT mice common between LMCs and VSMCs. Mt2 (and Mt1, omitted for redundancy), Timp1, Mmp3, Prg4, and Cxcl12 are the top 5 upregulated genes in tumor necrosis factor transgenic (TNF-Tg) lymphatic muscle cells (LMCs) that similarly demonstrate increased expression in TNF-Tg vascular smooth muscle cells (VSMCs) (bold). On the other hand, Apod, Galnt15, Ccdc80, Zbtb16, and Klf9 are the top 5 downregulated genes in TNF-Tg LMCs that were also differentially expressed in TNF-Tg VSMCs (not bold). Proteins coded by the gene, log₂ fold-change (log2FC), and false discovery rates (FDRs) for LMCs and VSMCs are provided. The top 5 genes were ranked based on log2FC effect size with an FDR < 0.01. The genes were selected by evaluating the top up- or downregulated genes for LMCs and listed if the particular genes were also differentially regulated in VSMCs. The LMC and VSMC populations were defined based on the wild-type (WT) and TNF-Tg integrated datasets in Fig. 3. A complete list of differentially expressed genes in TNF-Tg mice for both LMC and VSMC populations is provided in the Supplementary Materials

Gene	Protein	Avg Log2FC (LMC & VSMC)	FDR (LMC & VSMC)
Mt2	Metallothionein 2	2.08 & 1.19	2.26E−20 & 1.04E−13
Timp1	Timp1	1.69 & 1.61	7.79E−91 & 1.59E−65
Mmp3	Matrix Metalloproteinase-3	1.65 & 1.41	5.58E−40 & 1.27E−61
Prg4	Proteoglycan 4 / Lubrican	1.56 & 1.46	7.71E−34 & 1.08E−43
Cxcl12	C-X-C Motif Chemokine 12	1.54 & 0.69	2.59E−76 & 4.77E−21
Apod	Apolipoprotein D	− 1.30 & − 1.61	1.21E−87 & 3.99E−87
Galnt15	Polypeptide N-acetylgalactosaminyl-transferase 15	− 1.26 & − 1.28	5.5E−117 & 4.11E−62
Ccdc80	Coiled-coil Domain-Containing Protein 80	− 1.25 & − 1.69	3.8E−101 & 1.95E−82
Zbtb16	Zinc Finger and BTB Domain-Containing Protein 16	− 1.17 & − 1.07	2.9E−139 & 1.84E−75
Klf9	Krueppel-like Factor 9	− 1.10 & − 1.08	2.8E−122 & 1.62E−57