An idea for a masters-level class or journal club alternative: “Where are they now?” but for big splash papers published in the 2000s. Take a few papers published around 20 years ago, then follow what happened subsequently. Thinking about papers in my own field from that period, the broad possibilities are that a given paper: […]
Tag: papers
Let It Flow: recreating a FACS plot with ggplot
It’s plot recreation time! In this post, we’ll look at how we can recreate a plot in R. I thought it might be useful to provide the solution but also to detail the process I went through to get there. We have a FACS plot taken from a BD FACS Aria machine: Briefly, it’s a […]
Papers for MD9A8 – 2025 edition
Another year, another edition of “the papers I selected for a module that I teach”. Previous selections are grouped here or here. The list serves as a snapshot of interesting papers published in the previous 12 months or so. I hope it is useful to others who are looking for lists of papers to read, for student selections or […]
Prehistoric: when do authors preprint their papers?
Previously, I took advantage of a dataset that linked preprints to their published counterparts to look at the fraction of papers in a journal that are preprinted. This linkage can be used to answer other interesting questions. Such as: when do authors preprint their papers relative to submission? And does this differ by journal? There’s […]
Smaller: methods to reduce the size of a PDF file
Hot on the heals of the post on how to downsize microscopy movie files, let’s look at ways to shrink the size of a PDF file. There’s several ways to tackle this – suggestions came from this thread on Mastodon. Scenario: you have created a preprint/manuscript/proposal in PDF format. It looks great and is 18.4 […]
Papers for MD9A8 – 2024 edition
It is time for my annual post of the papers I selected for a module that I teach (MD9A8, the module formerly known as MD997). Previous selections are grouped here or here. The list serves as a snapshot of interesting papers published in the previous 12 months or so. I hope it is useful to others who are looking […]
Crosstown Traffic: new paper on vesicle transport
We have a new paper out describing how vesicles move inside cells. The paper in a nutshell In science-speak We analysed how small vesicles are transported in cells. In contrast to large vesicles and organelles, which move using motors inside cells, our analysis revealed that passive diffusion is the main mode of small vesicle transport. […]
Papers for MD9A8 – 2023 edition
It’s a New Year and so it is time to post the papers I have selected for a module that I teach on (MD9A8, the module formerly known as MD997). Previous selections are grouped here or here. The list serves as a snapshot of interesting papers published in the previous 12 months or so. I hope it […]
Papers for MD9A8 – 2022 edition
It is an annual event on quantixed to post the papers I have selected for what is now called MD9A8 (the module formerly known as MD997 Frontier Techniques and Research Skills in Biomedicine). Previous selections are grouped here. The list serves as a snapshot of interesting papers published in the previous 12 months or so. I hope it […]
Don’t Let Go The Coat: new paper on clathrin assembly
A new paper means a new paper explainer. This post is all about our new paper on clathrin assembly. Some background info Endocytosis is the way that cells take up material from the outside world. The cell can make tiny vesicles that bud inwards from the cell surface and pinch off to travel inside the […]