1. Additional File 7 K-means cluster graphs (15 clusters)

3. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

4. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

5. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

6. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2 Increased expression of genes including: BAX, BAX inhibitor 1, TRAIL receptor 2, CD9, EGFR, syndecan 4, signaling mediators, & genes involved in transcriptional regulation

7. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

8. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

9. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

10. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2 This set mostly includes ribosomal subunit genes as well as genes encoding beta-actin, beta-5-tubulin, and myosin light polypeptide

11. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

12. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2 Increased expression of genes including those encoding cathepsins L, L2, and Z, PPGB, EGFR, lamin B, poliovirus, leptin, MHC molecules, and solute/ion carrier transporters

13. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

14. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

15. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

16. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2

17. G1/S M Early G1 Middle G1 Late G1 Early S Late S G2