Fig. 2

Establishment of cell cycle transcriptome datasets. a Time-point pattern of thymidine double block and cell cycle release. b Flow cytometry plots of the cell cycle distribution of synchronized HCT116 cells. P3/4/5 are the proportion of cells in G₁, S, and G₂/M phases, respectively. X-axis is the time since cell cycle release. c Flow cytometry plots of the cell cycle distribution of synchronized MDA-MB-231 cells. P3/4/5 are the proportion of cells in G₁, S, and G₂/M phases, respectively. X-axis is the time since cell cycle release. d–f FPKMs for some cell-cycle-related genes that are characteristically expressed in the G₁/S, G₂/M, and M-G₁ phases in synchronized HCT116 cells, cells were harvested at 0, 3, 7, 8, 9, 10, 11, and 13 h after G₁/S phase release, and diagram below indicates cell cycle stage. FPKM values of CCNE2, PCNA, CDK2, CCND3, and BUB3 (d); FPKM values of CDC20, CCNA2, CCNB1, BUB1, TP53, AURKA, and CENPF (e); FPKM values of TPR, RFC1, CENPJ, NEDD1, ATM, and CDC23 (f). g–i FPKMs for some representative genes that are highly expressed in the G₁/S, G₂/M, and M-G₁ phases in MDA-MB-231 breast cancer cells, cells were harvested at 0, 3, 4.5, 6, 7, 9, 10, 11.5, 13, and 16 h after G₁/S phase release, and diagram below indicates cell cycle stage. FPKM values of E2F2, CCNE2, PCNA, RFC1, and NEK6 (g). FPKM values of CENPM, CDKN2D, LMNB1, CCNA2, CENPF, CENPE, and TOP2A (h); FPKM values of LPIN1, NINL, RAD9A, PCBP4, and NEK6 (i). FPKM fragments per kilobase of exon model per million mapped fragments