There have been calls for journals to publish the distribution of citations to the papers they publish (1 2 3). The idea is to turn the focus away from just one number – the Journal Impact Factor (JIF) – and to look at all the data. Some journals have responded by publishing the data that underlie the JIF (EMBO J, Peer J, Royal Soc, Nature Chem). It would be great if more journals did this.

A few days ago, Retraction Watch published the top ten most-cited retracted papers. I saw this post with a bar chart to visualise these citations. It didn’t quite capture what the effect (if any) a retraction has on citations. I thought I’d quickly plot this out for the number one article on the list. The plot is pretty depressing. The retraction has no effect on citations.

In a big step forward for allowing proper credit to be provided to all of the awesome folks collecting and publishing data, the journal Global Ecology & Biogeography has just announced that they will start supporting an unlimited set of references to datasets used in a paper. These references will be included immediately following the traditional references section in both the html and pdf versions of the paper.

bioRxiv, the preprint server for biology, recently turned 2 years old. This seems a good point to take a look at how bioRxiv has developed over this time and to discuss any concerns sceptical people may have about using the service.

For the past few years I’ve been involved in a collaboration to put together a broad-coverage life history database for mammals, reptiles, and birds. The project started because my collaborator, Nathan Myhrvold, and I both had projects we were interested in that involved comparing life history traits of reptiles, mammals, and birds, and only mammals had easily accessible life history databases with broad taxonomic coverage.

Our recent paper on “the mesh” in kinetochore fibres (K-fibres) of the mitotic spindle was our first adventure in 3D electron microscopy. This post is about some of the new data analysis challenges that were thrown up by this study. I promised a more technical post about this paper and here it is, better late than never.

Recently, over at the blog Ecological Rants the eminent ecologist Charles Krebs wrote a post about the ills of simplification in ecology. The post focuses specifically on how ecology has been ‘led astray’ by simplified models and lab studies. This has recently been picked up on Dynamic Ecology by Jeremy Fox who responded generally to the post but specifically to the affront to microcosms.

On our final day (day 1, day 2), I was only able to hear Boris Kotchoubey‘s (author of “why are you free?“) talk, as I had to leave early to catch my flight. He made a great effort to slowly introduce us to nonlinear dynamics and the consequences it has for the predictive power of science in general.

While the first day (day 2, day 3) was dominated by philosophy, mathematics and other abstract discussions of chance, this day of our symposium started with a distinct biological focus. Martin Heisenberg, Chance in brain and behavior First speaker for this second day on the symposium on the role of chance in the living world was my thesis supervisor and mentor, Martin Heisenberg.

Ulrich Herkenrath, a mathematician working on stochasticity, convened a tiny symposium of only about a dozen participants discussing the role of chance in living beings. Participants included mathematicians, philosophers and neurobiologists.