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At #ASMS2024 I heard about a package to read bruker data. TIMS Rust. Can someone give me a point to that software?

Proteomics is the key to understanding cellular activity + MetaMorpheus @metamorpheus.bsky.social is unlocking its full potential with innovative software tools for #SingleCell analysis 💻 🧬

Yo. When are those posters and talks gonna be available from #ASMS2024 ?

Proteins within cells are complex, but MetaMorpheus @metamorpheus.bsky.social is developing open source software tools to make #SingleCell proteomic data more sensitive + reliable 🌟

The field benefits when teams work together to make high quality, free search tools available. Team Alexey Nesvizhskii is a fun group to collaborate with. Thanks to Dan Polasky for getting the ball rolling.

After seeing so many people excited about their 1 and 2 percentile scores on R01's posting on X, I feel compelled to share a more common outcome. LOL. Don't worry, it WILL be back. Over and over again until funded. New PI's- this is quite common, don't be discouraged!

proud of Alyssa's first paper!

Congrats to Isabella Whitworth with side-props to @scienchica, AbenaK-T, et al. for her new study online Journal of Proteome Research IDing host proteins with roles in HBV RNA genome packaging. Another fab viral proteomics collab with MetaMorpheus @metamorpheus.bsky.social. pubs.acs.org/doi/full/10.10…

A fantastic session on women’s initiative and DEI at 2024 Wisconsin Human Proteomics Symposium! Thanks to Lauren and Anna Grace &team for all their hard work! Thanks to all the speakers and panelists! Females in Mass Spectrometry (FeMS) Judith Simcox PhD @MosleyLab Si Wu @KimpleLab ❤️👍🌸

Also congrats to all the poster awardees: Isabella Whitworth MetaMorpheus @metamorpheus.bsky.social winning the first place 🥇, Matt Fischer Ying Ge Research Lab UW-Madison Chemistry for the 2nd place🥈; Shuangshuang Chen Cy Sweedler lab Chemistry at Illinois and Yutong Bao Andrea Galmozzi lab for 3rd place 🥉🙌🎉👍🎊

I’m excited to see this study in collaboration with NIST published in ACS Analytical Chemistry Journals is out in print! The folks at NIST developed a quantum cascade IR laser for rapid glycan determination. I was happy to contribute some intact mass spec results. Check it out! pubs.acs.org/doi/10.1021/ac…

Benjamin Gyori and I comment on a new frontier of AI-assisted interpretation of proteomic investigations nature.com/articles/s4159…

🔓 #OpenAccess + Most Read in the past 30 days: "Are We There Yet? Assessing the Readiness of Single-Cell Proteomics to Answer Biological Hypotheses" go.acs.org/aHK

What is the appropriate way to compute FDR when you have a low number of peptide identifications. <50 or <100 or <500. The standard target/decoy formula works well for a few 1000 ids but is harsh for a few dozen. Side note, I don't really know if FDR matters for low numbers...LOL

(2/2) 👉 Papers without code are just advertisements. 👉 #OpenSource is only good for science. 👉 Proprietary software has a place in commercialization. 👉 There are models to commercialize #OpenSource software. Read it here: willfondrie.com/2024/10/the-ca…

I respect all in #OpenSource discussions in #proteomics. We share challenges but face different constraints. My hope is that transparency, openness, kindness, and collaboration lead the way. In science, our biggest legacy is setting the bar for those who come after us.

Happy Native American Heritage Month! Celebrate and share with Judith Simcox PhD's inspiring journey: bit.ly/simcox

Improved detection of differentially abundant proteins through FDR-control of peptide-identity-propagation biorxiv.org/content/10.110…

#teamMassSpec. I’m so excited to share our work on improving quantification through FDR controlled peptide identity transfer (MBR). Funded by CZI Science and @NIGMS