@steveroyle@biologists.social
@steveroyle@biologists.social avatar

steveroyle

@steveroyle@biologists.social

I'm into chord changes and cell biology.

Professor at University of Warwick. Director, Trustee and Deputy Chair of The Company of Biologists. Affiliate of bioRxiv. Author of "The Digital Cell". Views my own, obviously.

#CellBiology #MembraneTrafficking #CellDivision #Microscopy #ImageAnalysis #Science #ScienceMastodon #Academia #AcademicMastodon and #Music #Running #Cycling

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steveroyle, to random
@steveroyle@biologists.social avatar

Interesting read on "Finding my leadership style" by Helen Walden. A personal reflection on being a PI, a Head of School with a side order of doing so as a woman.

Sorry, it's paywalled (and I have to say very difficult to access even with a subscription) but I enjoyed reading it.

https://doi.org/10.1016/j.chembiol.2024.04.010

steveroyle, to random
@steveroyle@biologists.social avatar

Google offers “web search” option without all the AI gunk. Idea: they could maybe make this default?

#TurnBackTheClock

https://www.theverge.com/2024/5/14/24074314/google-now-offers-web-search

steveroyle, to random
@steveroyle@biologists.social avatar

It seems I have found a new way to procrastinate on a grant application. Using #Rstats to make my Gantt chart!

steveroyle,
@steveroyle@biologists.social avatar

@albertcardona I know, I know. In my defence this is a slightly "corporate" thing and I suspect they will value the presentation of the aforementioned wishful thinking :-)

steveroyle,
@steveroyle@biologists.social avatar

@albertcardona wait, no one mentioned the missing figures??

steveroyle,
@steveroyle@biologists.social avatar

@albertcardona I agree with you. Although in this case, I feel it is helping me to plan. The person needs to work at another lab for part of the project. That would be best to tie in with the academic year for housing reasons. That affects when one aim is completed by, which means another aim needs starting later etc etc.

I know the Mike Tyson quote before you say it :-)

neuralreckoning, to academia
@neuralreckoning@neuromatch.social avatar

So oral exam at end of PhD. Good idea or just a tradition that doesn't make any sense any more? What are the good things about them? If we didn't do them, how else could we get those good things?

steveroyle,
@steveroyle@biologists.social avatar

@neuralreckoning it’s a good idea but the variability in examiners (and their expectations) mean that it's not exactly fair for every student.
In the UK (as you know) it’s a deep dive for the student and examiners, in other countries they are theatre with a large jury and simple questioning in public. So at least in the UK it has a purpose as an exam.

steveroyle,
@steveroyle@biologists.social avatar

@kofanchen @neuralreckoning @nicolaromano good point. The folks in my lab know that to get the real experimental details, the thesis is a better bet than the paper! Also, I have a look at the ones I get alerts for on Google Scholar because they've cited our work.

steveroyle, to random
@steveroyle@biologists.social avatar

This is cool. Wade Harper’s lab are experimenting with publishing direct to their lab website.
https://harperlab.pubpub.org

There is one pub up at the moment which is also on bioRxiv
https://harperlab.pubpub.org/pub/nlrp3/release/1

An editor has been assigned and it looks like peer review will be totally open.

The first author Robert Hollingsworth has written a thread on the bad place about his motivations behind this expt (seek it out if you're interested!)

MCDuncanLab, to random
@MCDuncanLab@mstdn.social avatar

Okay, so autosave saved the day. I stayed home to work on a new section of a grant and have not saved any aspect of it, not once all day. My computer completely crashed—this never ever happens to me.

Lo and behold I lost not even one letter.

steveroyle,
@steveroyle@biologists.social avatar

@albertcardona @MCDuncanLab Albert, writing grants in vim… I salute you sir!

steveroyle, to random
@steveroyle@biologists.social avatar

This preprint on native synaptic vesicles structure comes hot on the heals of related work from others.

The images are so cool. Clathrin coated vesicles in synapses are only partially coated.

http://biorxiv.org/cgi/content/short/2024.04.11.588828v1

steveroyle, to Espresso
@steveroyle@biologists.social avatar

Having just serviced and replaced seals on a La Pavoni #espresso machine using nothing but #cycling tools and bike grease, I am wondering if I now qualify for Italian citizenship.

deevybee, to Pubtips
@deevybee@mastodon.social avatar

My thoughts on eLife's publishing model, one year on.
http://deevybee.blogspot.com/2024/03/some-thoughts-on-elifes-new-model-one.html
#publishing #academic #journals #peerReview #preprints

steveroyle,
@steveroyle@biologists.social avatar

@BorisBarbour @MarkHanson @deevybee @albertcardona just to say they did but it is now only accessible on the wayback machine. I learned that it’s offline from @richardsever posting on the bad place.

https://web.archive.org/web/20191027120856/https://elifesciences.org/inside-elife/a058ec77/what-it-costs-to-publish

jonny, to random
@jonny@neuromatch.social avatar

I know that self hosting shit is not for everyone, but if you use github private repos and dont want them to get swooped like The Stack, using yunohost to set up a personal forgejo instance is simpler than you think - once you get yunohost running, its all point and click. Ive been using gitea->forgejo like this for about 2 years (I think?) for all my personal stuff, notes, one-offs, writing, etc. And zero problems.

Not yet ready for larger scale public collaboration imo (getting there!) But definitely very usable for personal shit.

steveroyle,
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@jonny that sounds great. May I ask how you're self-hosting it? I guess gitea is not resource hungry or anything…

steveroyle, to microscopy
@steveroyle@biologists.social avatar

Preprint describing Nellie, a napari plugin for automated organelle segmentation. Results look impressive!

https://arxiv.org/abs/2403.13214

repo (with video): https://github.com/aelefebv/nellie

andrewplested, to random
@andrewplested@mstdn.science avatar

Me: 10.7Mb PDF, please reduce the file size.

Adobe Acrobat: OK, 11 Mb

steveroyle,
@steveroyle@biologists.social avatar

@andrewplested ha ha! Do you need to get it under 10 MB? Colorsync Utility on Mac can work wonders if you're looking for an alternative.

steveroyle, to random
@steveroyle@biologists.social avatar

Wow, this looks exciting!

“Atomically accurate de novo design of single-domain antibodies”

from the Baker lab (of course)

https://www.biorxiv.org/content/10.1101/2024.03.14.585103v1

steveroyle,
@steveroyle@biologists.social avatar

Nature News covers the antibody design preprint.

I'll mischievously suggest that this is what Nature as a bioRxiv overlay journal could look like.

https://www.nature.com/articles/d41586-024-00846-7

steveroyle, to random
@steveroyle@biologists.social avatar

My calendar for tomorrow shows a quadruple booking. Only a triple booking today.

#LifeOfPI

steveroyle,
@steveroyle@biologists.social avatar

That was not meant to be a "look at me” post, btw. Just highlighting how bananas the workload of this job can be sometimes. #LifeOfPI

steveroyle,
@steveroyle@biologists.social avatar

aaaand just received an invite to “Prioritising Your Workload and Knowing When to Say No”, a workshop which runs from 1000-1600. #LifeOfPI #JustSayNo #ZammoWasRight

steveroyle, to random
@steveroyle@biologists.social avatar

Post by Markus Meister about @eLife ’s publishing model. Positive assessment and a plea to make “live” preprints & abandon typesetting.

https://markusmeister.com/2024/03/17/a-year-into-elifes-new-publishing-model/

#scientificpublishing

steveroyle, to random
@steveroyle@biologists.social avatar

The neuroscientist formerly known as Prince’s audio engineer

https://www.nature.com/articles/d41586-024-00791-5

steveroyle, to random
@steveroyle@biologists.social avatar

What fraction of a journal's papers are preprinted?

tl;dr: in cell/dev biol journals it's about 25-50%

https://quantixed.org/2024/03/09/pre-self-what-fraction-of-a-journals-papers-are-preprinted/

steveroyle, to random
@steveroyle@biologists.social avatar

Surely this is a resigning matter? UK's “science minister" libelled two academics (by uncritically repeating a false claim by right wing think tank Policy Exchange) and has to pay damages. It transpires she has done so using the public purse.

https://www.theguardian.com/politics/2024/mar/05/uk-science-minister-michelle-donelan-apologises-and-pays-damages-after-academics-libel-action

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