Fig 1. Microtubule damage triggers DGE.

(A-D) DGE in RPE1 hTert cells treated with microtubule poisons for 6 (a and b) or 24 h (c and d). Data are represented as average Log₂FCs from three independent biological replicates, relative to basal expression in DMSO-treated control cells. Plotted are expression profiles of genes that have p-value < 0.05 and >50 mRNA reads per million, in 1 nM CA4- and 3 nM PTX-treated cells (a and c) and 100 nM CA4- and 300 nM PTX-treated cells (b and d). In red are depicted genes with FDR < 0.02 for low drug doses and < 0.001 for high drug doses, of which names are printed for top 20 genes. Plot quadrants are labeled from I–IV. (E and F) GSEA based on expression profiles of genes from quadrants II and IV, from cells treated with high drug doses for 6 (b) or 24 h (d). Plotted are −Log₁₀ BH-adjusted p-values of the top five enriched GO terms in the category Biological Process, with BH-adjusted p-value < 0.01. ACTB, β-actin; ACTN, actinin; ANKRD, Ankyrin Repeat Domain; BH, Benjamini–Hochberg; CA4, combretastatin A-4; CCDC, Coiled-coil domain containing; COX, Cytochrome C Oxidase; CTGF, Connective Tissue Growth Factor; CYR, Cytochrome Reductase; CYTB, Cytochrome B; DEG, differentially expressed gene; DGE, differential gene expression; EGR, Early Growth Response; ERRF, Endoplasmatic Reticulum-Related Factor; FDR, false discovery rate; GO, gene ontology; GSEA, gene set enrichment analysis; hTert, human telomerase reverse transcriptase; KHDRBS, KH RNA Binding Domain Containing, Signal Transduction Associated; LBH, Limb Bud And Heart Development; Log₂FC, Log₂ Fold Change; MALAT, Metastasis-Associated Lung Adenocarcinoma Transcript; MAP, microtubule-associated protein; MEG, Maternally Expressed Gene; ND, NADH Dehydrogenase; NEAT, Nuclear Paraspeckle Assembly Transcript; NKTR, Natural Killer Cell Triggering Receptor; OGT, O-Linked N-Acetylglucosamine Transferase; PTX, paclitaxel; RPE1, retinal pigment epithelial 1; SCG, Secretogranin; SLC, Solute Carrier Family; SRF, Serum Response Factor; SRM, Spermidine Synthase; THBS, Thrombospondin; TMX, Thioredoxin Related Transmembrane Protein; TM4SF, Transmembrane 4 L Six Family Member; TNFRSF, Tumor Necrosis Factor Receptor Superfamily Member; TTC, Tetratricopeptide Repeat Domain; TUBA, α-tubulin; TUBB, β-tubulin; XIST, X Inactive Specific Transcript.