metaproteomics?????? skeptical scientist here: but, let's say for argument sake you wanted to confidently identify an adventitious bacterial protein in human plasma, is there a "gold-standard" method? I assume the search result is merely the start point.

There is a position open in our lab, within this network. Our project deals with assessing identification and quantification errors for MS-based proteomics. www.protaiomics.eu/project/dc13...
Please check out all the project descriptions at the site below:

Referee questioned the adoption/accessibility of lc-ms to the research community. I think that's reasonable. So, realistically, how big of a problem do I need to solve to make my method worth the investment and effort? What is a thoughtful response to this critique?

Improved Detection of Differentially Abundant Proteins through FDR-Control of Peptide-Identity-Propagation pubs.acs.org/doi/10....

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#proteomics #prot-paper

Phenotype of the contemporary grant referee:

Hey Team Proteomics.

New release of MetaMorpheus now natively supports Bruker .d files for DDA PASEF.

Also now supporting .msalign as inputs.

get your copy free now while they last:
github.com/smith-chem-w...

Stop by poster ThP 289 to… calmly discuss… metadata collection and management with Anastasiya 👏

#ASMS2025

Does a print (paper) version of JPR still get published?

Two new IsoDec tutorial videos to go over top-down proteomics searching with a few different workflows, one with TopPIC and the other with MetaMorpheus @metamorpheus.bsky.social :

youtu.be/OTQbplEezLQ

and

youtu.be/56OZJph48BU

In a 2 year period, we have had three major DIA software platforms (one open source) establish companies.
The newest, Fragmatics, is now licensing MSfragger instead of the University of Michigan.
www.fragmatics.com

Europe’s choice is clear.

To put science at the heart of its economy.

To become the home of scientific freedom and collaboration.

And to welcome talent from all over the world.

I’m glad to present the first elements of our Choose Europe Initiative.

→ europa.eu/!TTbWbJ

EU augments opportunities for scientists around the world to launch or re-launch their careers in Europe.

Nobody could have imagined that this great global democracy, whose economic model depends so heavily on free science,.. was going to commit such an error – Emmanuel Macron
www.youtube.com/watch?v=N-Rl...

"Science is an investment.

We will put forward a new 500 million package for 2025-2027 to support the best and the brightest researchers and scientists from Europe and around the world."

— President @vonderleyen.ec.europa.eu at the ‘Choose Europe for Science' event at La Sorbonne 🇫🇷

Maybe ignore the news for a bit… and listen to this week’s #THEProteomicsShow. Me and @proteomicsnews.bsky.social got to chat with @metamorpheus.bsky.social and it was lovely. Find it wherever you find fine podcasts, or here: anchor.fm/theproteomic...

New to proteomics?? We have like one rule! Make your data available!! proteomicsnews.blogspot.com/2025/04/subm...

Here are a couple of thoughts I had "for the next generation" of analytical scientists.

www.chromatographyonline.com/view/a-messa...

Discussed the importance of my many mentors with Aaron Acevedo. I'm feeling so much gratitude for all those that took time to train and inspire me.

www.chromatographyonline.com/view/influen...

I'm about to post some conversations I had with Aaron Acevedo, that are now published in LC/GC. The first video discusses the @asms.org Al Yergey award and what it means for me to receive it.
www.chromatographyonline.com/view/the-pat...

A few more spots are still open for some of the in-person programs at May Institute on Computation and Statistics for Mass Spectrometry and Proteomics on April 28 – May 11, 2025 on the campus of Northeastern University in Boston MA computationalproteomics.khoury.northeastern.edu

Free copies of MetaMorpheus available for an unlimited time. Get yours now before they are all gone!

github.com/smith-chem-w...

Markovich et al. have identified dehydroamino acids (DHAAs) as a novel posttranslational modification in Alzheimer’s disease protein aggregates, potentially driving aggregation via protein crosslinking, especially in Tau protein. Please read at: buff.ly/3EQtOfP <a href="https://bsky.app/profile/did:plc:gyx6rqvjthswe6d5xykqjvgu" class="hover:underline text-blue-600 dark:text-sky-400 no-card-link" target="_blank" rel="noopener" data-link="bsky-mention">@metamorpheus.bsky.social

github.com/smith-chem-w...

If you want to try it out, IsoDec is bundled with UniDec, and there is a simple GUI for doing individual spectra and full files. For doing full top-down proteomics searches, we've bundled it into @metamorpheus.bsky.social, where it really shines!

May Institute on Computation and Statistics for Mass Spectrometry and Proteomics @KhouryCollege @Northeastern in Boston MA is happening in person on April 28-May 11, 2025 and is accepting applications! You will not regret attending computationalproteomics.khoury.northeastern.edu