Some general questions about cyclical gene expression as it could hold the key for truly understanding and subsequently completely abolishing aging.
1.) What is actually the advantage of constructing co-expression and regulatory networks from time-series data compared to non-time series data?
2.) Can time-series data add new dimensions to our findings that other data cannot?
3.) Could it be that the relatively transient very brief, but periodically reoccurring and highly oscillating mRNA levels, which may fluctuate synchronously for some genes while asynchronously fluctuate for others.
4.) Will relative timings between the oscillation periods for different genes change as the yeast ages?
5.) Will the relative expression change between different genes over time? Are the time periods of oscillations equal for all genes?
6.) Could it be that the highly regulated, very rapid, but equally transient mRNA oscillations serve any purpose , other than progressing through the cell cycle stages and checkpoints with the only final objective to maximize replication output or may it have some still undiscovered benefits?
7.) How come that even most genes, which belong to pathways that are generally believed to remain unaffected by the cyclical fluctuations of the cell cycle seem to follow its two major temporal anti-correlated expression motifs very strongly?
8.) Which biological properties other than replication are lost or altered when the cell cycle stops?
9.) Are the amplitude or period of the cyclical expression change with advancing age?
10.) How is the cyclical behavior of the cell cycle similar to, or, different from the sleep-wake-cycle?.
11.) Does yeast have a sleep-wake-cycle too?
12.) Are there any experiments or datasets exploring the cyclical expression, which can be assumed for the sleep-wake-cycle?
13.) In humans, many of our cells, especially the very rapidly dividing polypoetic stem cells, red blood precursor cell, bone marrow cells, stomach lining and immune cells, keep dividing very rapidly. Hence, even in humans, cell cycle induced fluctuations should be more noticeable. Has the human or mouse transcriptome ever been analyzed in short enough time intervals for detecting the relatively short but surprisingly intense fluctuations driven by the cell cycle?
14.) If we keep spreading our time intervals to far apart for detecting these transient periodically reoccurring cell cycle driven concentration changes aren't we at risk of missing something very essential? .
Could you please email me links to cell cycle and sleep-wake cycle datasets?
Where can I find proteomic cell cycle datasets for yeast?
Please email me directly at Thomas.F.Hahn3@gmail.com because I cannot see well enough to effectively communicate on this platform since the links, on which I need to click to reply are of too low contrast for me to find. You can also Skype me at tfh002 or call me at my cell phone at + 1 (318) 243 3940
Thanks in advance for considering helping me out