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. Author manuscript; available in PMC: 2024 Apr 24.
Published in final edited form as: Science. 2024 Apr 4;384(6691):53–59. doi: 10.1126/science.adf3481

Fig. 2. Molecular identity of long-retained RNA.

Fig. 2

(A) Retention of EU signals in quiescent NPCs (quiNPCs) in vitro. Proliferating NPC (proNPC). Scale bar, 10 μm. (B) Quantification of EU intensity in proNPCs and quiNPCs at day 1 (D1) or day 8 (D8) after EU labeling. Kruskal-Wallis test followed by Dunn’s multiple comparison test; ***P < 0.001, ****P < 0.0001, dots indicate individual cells. (C) MA plot showing EU-enriched (gene-derived) RNAs in quiNPCs at 8 days after EU labeling, as determined by EU-RNA-Sequencing. Significantly EU-enriched RNAs were defined as adjusted P < 0.05 and fold change > 2 compared to non-EU-labeled quiNPCs (n=3 experiments). (D) Gene class distribution of EU-enriched RNA in quiNPCs. (E) Protein-coding RNAs were underrepresented, whereas long non-coding RNAs (lncRNA) and uncharacterized transcripts (TEC) were over-represented in EU-enriched RNA. ***P < 0.001 (linear regression). (F) Top significantly enriched Reactome pathways among EU-enriched RNAs in quiNPCs (adjusted P < 0.05). (G) MA plot showing EU-enriched (gene-derived) RNAs in hippocampus tissue of 5-week-old mice that were injected with EU at postnatal days P3-P5 (n = 3 mice/group). (H) Gene class distribution of EU-enriched RNA in the hippocampus. (I-J) Distribution of EU-enriched RNAs that map to repeat RNAs in quiNPCs and hippocampus tissue.