Sometimes people try to replicate a published result such as gene expression variation during the cell cycle and fail, and thus do not publish as this is a "negative" result and journals generally require a "positive" result. I would love to get some responses in this area.
For the past 36 years I have been skeptical of cycle-specific gene expression and have published many papers on the subject attacking what I call the "standard model" of passage through the cell cycle.
Some of the key papers (a selection of many more) that deal with this problem are:
Shedden, K. & Cooper, S. Analysis of cell-cycle-specific gene expression in human cells as determined by microarrays and double-thymidine block synchronization. Proc Natl Acad Sci USA 99, 4379-4384 (2002).
Cooper, S. Analysis of cell-cycle-specific gene expression in Saccharomyces cerevisiae as determined by Microarrays and Multiple synchronization methods. Nuc Acids Res 30, 2920-2929 (2002).
Cooper, S. & Shedden, K. Microarrays and the relationship of mRNA variation to protein variation during the cell cycle. J Theor Biol 249, 574-581 (2007).
Cooper, S. On a heuristic point of view concerning the expression of numerous genes during the cell cycle. IUBMB life 64, 10-17 (2012).
Cooper, S. Rethinking synchronization of mammalian cells for cell-cycle analysis. Cell Mol Life Sci 6, 1099-1106 (2003).
Cooper, S. Is Whole-culture synchronization Biology's "Perpetual Motion Machine"? Trends in biotechnology 26, 266-269 (2004).
Cooper, S. Gene espression during the cell cycle: Obfuscation of original cell-cycle expression data by Normalization. Journal of Cells 1, 1-7 (2015).
Cooper, S. Schizosaccharomyces pombe grows exponentially during the division cycle with no rate change points. FEMS Yeast Res 13, 650-658 (2013).
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