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Exotoxins lab @exotoxinslab.bsky.social · 1d

Finally 🥳. Our resource paper under Open Science and FAIR data principles 🧪. I never thought that a simple resource paper will take more than 1 1/2 years to get reviewed. But now it is finally out bmcresnotes.biomedcentral.com/articles/10....

Toxin data quality: a critical examination of bacterial exotoxins and animal toxins - BMC Research Notes

Objective Existing toxins datasets include a mixture of proteins and toxin peptides. In this study we present two curated datasets of toxic proteins free of associated proteins: bacterial exotoxins an...

bmcresnotes.biomedcentral.com

Exotoxins lab @exotoxinslab.bsky.social · Aug 10

🧪Our first paper with Machine Learning under Open Science principles and FAIR data is out! rdcu.be/ezXFx

Exo-Tox: Identifying Exotoxins from secreted bacterial proteins

rdcu.be

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Exotoxins lab @exotoxinslab.bsky.social · Jun 2

Mint and tuxedo are super user-friendly. I use both distros for my students, and they never believe that it is linux 🤣

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Exotoxins lab @exotoxinslab.bsky.social · Apr 24

You have analized your data with many steps. Do you want to make the analysis reproducible for others and your future-you? If you are in the LMU Munich, you can come to our workshop on *May 6th*. We will show you how to create workflows in R. Www.pretix.osc.lmu.de/lmu-osim/hig... 🧪

Reproducible analysis of high-throughput data with R

Tue, May 6th, 2025

Www.pretix.osc.lmu.de

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Exotoxins lab @exotoxinslab.bsky.social · Apr 13

🏆Tuxedo computers 🇩🇪

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Reposted by Exotoxins lab

AlphaFold Unofficial @alphafold.bsky.social · Jan 28

More of this, please. Welcome to Bluesky, finally crawling out of the Upside Down? No Demogorgons here, the forecast is clear, the science sharper, and the community healthier.

www.reuters.com/world/europe...

EU medicines agency quits X, moves to Bluesky

The European Medicines Agency (EMA) said on Monday it would no longer post on X and would use rival Bluesky instead, becoming the latest organisation to quit a social media platform that some have criticised for its content.

www.reuters.com

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Reposted by Exotoxins lab

Florian Naudet @floriannaudet.bsky.social · Dec 18

« Assessing the feasibility and impact of clinical trial trustworthiness checks via an application to Cochrane Reviews: Stage 2 of the INSPECT-SR project » by a gang of researchers led by @jackwilkinson.bsky.social

Assessing the feasibility and impact of clinical trial trustworthiness checks via an application to Cochrane Reviews: Stage 2 of the INSPECT-SR project

Background The aim of the INSPECT-SR project is to develop a tool to identify problematic RCTs in systematic reviews. In Stage 1 of the project, a list of potential trustworthiness checks was created....

www.medrxiv.org

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Exotoxins lab @exotoxinslab.bsky.social · Dec 17

Iron is essential for growth of Tetrahymena in axenic media (prey-free)🧪. Last time we made our stock solution was three years ago. How do we prepare it and store it? The details are now published in @protocolsio.bsky.social under www.protocols.io/view/fecl3-s... and just in time for a new lot 🥼🫡

FeCl3 solution for NEFF Media

For axenic growth of Tetrahymena thermophila in the lab, NEFF media requires a final concentration of 33 µM (see Tetrahymena Stock Center (RRID:SCR_008362)). To guarantee that...

www.protocols.io

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Exotoxins lab @exotoxinslab.bsky.social · Dec 17

Yap. You got it. Just make it in a way that his clothes change while going through the pipe. Piping requires some change or process to take place 😉.

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Exotoxins lab @exotoxinslab.bsky.social · Dec 17

Hi Erik, I would like to be added to the microbiologist and/or bioinformatics and/or toxinologist feed. Here is my ORCID: orcid.org/0000-0001-85... and my YouTube channel: youtube.com/@exotoxinsla... thank you for your time. Have a great day!!! 😊

ORCID

orcid.org

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Exotoxins lab @exotoxinslab.bsky.social · Dec 17

One after another. Like an assembly line. The product of one station will be passed to the next one. Imagine each working station is a function or command of the computer. The term for "at the same time" is parallel processing or parallel programming.

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Exotoxins lab @exotoxinslab.bsky.social · Dec 16

You just need to consider: typing is annoying, so many commands are just abbreviations of the full words: cat for concatenate and pipe for creting a pipeline. I have done the transition recently, so if you want I can help you 😉

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Exotoxins lab @exotoxinslab.bsky.social · Dec 16

Buffer is ready. Hmm. can I sterilize it in the autoclave? When the answer is no, the next best option is to do a sterile filtration. It's not a big deal, but it's easy to do it wrong. Here is our protocol! 🧪 Sterile filtration of liquid solutions www.protocols.io/view/sterile...

Sterile filtration of liquid solutions

Some liquids are not suitable for autoclaving but need to be sterile for use. Here we describe the process of filtering any solution to achieve sterility (at least removal of or...

www.protocols.io

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Exotoxins lab @exotoxinslab.bsky.social · Dec 13

Nothing more annoying than preparing buffers, but extremely necessary if we want to mate ciliates. Here is our protocol for the 1 M Tris-HCl pH 7.5 for Tetrahymena mating (Stock solution) www.protocols.io/view/1-m-tri.... We hope it will be helpful for the community! 🧪 🤲🏻🥼

1 M Tris-HCl pH 7.5 for Tetrahymena mating (Stock solution)

In this protocol we specify the steps needed to create a 250 ml stock solution of 1M Tris-HCl solution used for the preparation of Tetrahymena thermophila cells for mating. The...

www.protocols.io

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Exotoxins lab @exotoxinslab.bsky.social · Dec 8

Oh no please! Then we will never get an update on the manuals. ThermoFischer has not updated a lot of the manuals for MolecularProbes or Gibco kits... let alone the Invitrogen cloning products. Terrible for #OpenScience 😟😞😕

Exotoxins lab @exotoxinslab.bsky.social · Dec 7

I love to help to solve challenges that come up in the lab, and yesterday I was able to link our protocol for veggie NEFF media in a personal communication (www.protocols.io/view/veggie-...) while discussing differences in flow cytometry results. Life is easier with @protocolsio.bsky.social 🤪🧪

Veggie NEFF media for Tetrahymena thermophila

The ciliate Tetrahymena thermophila has been a research organism used by a great community of scientists including biologist, geneticists and toxicologists. T. thermophila is a...

www.protocols.io

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Reposted by Exotoxins lab

Dan Yocum. Ugh, but 🐸. @yocum137.bsky.social · Dec 7

🧪⚛️😂🤣

Uncle Duke @uncleduke1969.bsky.social · Dec 7

i'm no stephen hawking but i think what happens is that they cancel each other out

Empty food tray with a label reading "Antipasta Pasta Salad, $7.99 /lb" next to trays with food at a self-service counter.

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Exotoxins lab @exotoxinslab.bsky.social · Dec 4

And it is free! No fee. You just need to cover your own food and lodging.

Exotoxins lab @exotoxinslab.bsky.social · Dec 4

Mlschool.rostlab.org for inscriptions

Machine Learning School for Toxinologists 2023

Machine Learning School for Toxinologists, Bioligists. We will teach the basics of machine learning with biological data.

Mlschool.rostlab.org

Exotoxins lab @exotoxinslab.bsky.social · Dec 4

We still have places in our Machine Learning School. Anyone in natural sciences or medical background can take part. You just need to be in Munich between the 9th and 12th of December and have the full day available! You will learn the basic of python and will apply it to create your own ML model 🧪

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Exotoxins lab @exotoxinslab.bsky.social · Dec 3

🥺 it is under a paywall 😫

Exotoxins lab @exotoxinslab.bsky.social · Dec 3

Two more protocols out in @protocolsio.bsky.social. Little by little we can build upon each one to get everything ready for the big ones. This time we have a buffer solution for Quality Control of the AlamarBlue stain, and a classic: Gram staining www.protocols.io/view/gram-st....

Gram staining

This protocol is performed as described by the ASM (American Society of Microbiologists) in their document Gram Staining Protocol, 1981. Our aim is to include all instructions t...

www.protocols.io

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Exotoxins lab @exotoxinslab.bsky.social · Dec 2

Question to the community 🧪: in the last 4 years, I have tutored PhD students from other labs and institutions. Too many have had a lot of problems because of bad PIs, and I do mean really bad scientist and people. Some are under investigation. How can I warn future students about them?

Reposted by Exotoxins lab

Science News @scinews.bsky.social · Dec 2

First-of-its-kind Online marketplace for sharing tissues, organs and other biological materials. @science.org

By @arukon0.bsky.social #scisky #news #science

www.science.org/content/arti...

Online marketplace for animal samples could cut waste and save lives

First-of-its-kind platform will allow scientists to share tissues, organs, and other biological materials

www.science.org

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Reposted by Exotoxins lab

Megan Ranney MD MPH @meganranney.bsky.social · Dec 1

These are outstanding resources for anyone engaged in creating scientific knowledge. 🧪🛟🩺

Science News @scinews.bsky.social · Nov 24

Three must read papers for PhD students. #scisky #PhD #science #research #academicsky

1. The importance of stupidity in scientific research

Open Access
journals.biologists.com/jcs/article/...

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