A paper from Mike Harris in the de Bruin lab http://www.ncbi.nlm.nih.gov/pubmed/23593391 just showed SBF binding on the Swi4 promoter in yeast. So the central TF of the G1/S transition sits on its own promoter, just like E2F1-3 binding on the E2F1 promoter in mammalian cells. ​This continues the uncanny likeness between the yeast and mammalian G1 control networks despite lack of conservation at the level of protein sequence (see Cross, Buchler and Skotheim http://www.ncbi.nlm.nih.gov/pubmed/22084380). We decided to go back and analyze SWI4 in the context of transcription timing as discussed our paper Eser et al 2011. It turns out the data for SWI4 in our CDC20 block release experiments were not good so we could not reliably detect transcriptional activation times. However, in the G1 block-release experiments we do see nice early activation of SWI4 transcription consistent with Mike's data and consistent with our feedback-first model in which we predict feedback loop elements responsible for cell cycle commitment get activated prior to other co-regulated genes. Nice!

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AuthorJan Skotheim

F Caval-Holme, JL Payne & JM Skotheim, “Physiological and cell biological limits on protist offspring size” will appear in Evolution.  ​Just a few minor changes left to complete... Good news comes in waves. This is an interesting survey of ~3000 parent offspring pairs of the single celled protist foraminifera. Even though parent and offspring sizes can differ by a thousand fold, they still increase together as larger parents have larger, rather than just more offspring.  So, across eukaryotes, from single to multi-celled, offspring size scales with parent size.

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AuthorJan Skotheim

Feedforward Regulation Ensures Stability and Rapid Reversibility of a Cellular State by Andreas and myself hit the press yesterday over at Mol Cell (our favorite journal). Click here to download. It is a nice paper that unfortunately spent almost 2 years between the first submission and coming out in print illustrating what is wrong with scientific publication. Nevertheless, enough whining, it is a nice paper. Congratulations to Andreas!
This paper touches on many important points including the degree to which small network motifs can be analyzed separately from the larger networks in which they are embedded - a very general, important, and very unresolved issue at the foundations of biologic regulation.

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AuthorJan Skotheim

According to the mother, Jenny: "Vanessa Sophie Ritter was born April 18th, 11.22 pm. We are at home and everybody involved is doing fine J  More info soon!"

Congratulations to Jenny and Ulrich!​

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AuthorJan Skotheim

A nice writeup in the Stanford daily on the winners of the Dean's award for a significant achievement by an undergraduate http://news.stanford.edu/news/2013/april/undergrads-deans-awards-041013.html Congratulations again to Franklin

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AuthorJan Skotheim