Ever wondered how many closely eluting peptides have the same fragmentation pattern? In collaboration with Mathias Wilhelm we explored the theoretical nonaccessible portion of the human proteome. Check our new publication at ACS Analytical Chemistry Journals #proteomics pubs.acs.org/doi/10.1021/ac…

There are still a few more days till Bits and Bites #7: Using MetaboAnalyst for Metabolomics Statistics and Data Visualizations. If you are interested sign up today! 📅 Date: October 3, 2024, 9am–1pm PT 👨‍🏫 Instructor: Dr. Jianguo (Jeff) Xia 🔗 metabolomics.ucdavis.edu/bits-bites-07

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

I almost never analyze SILAC samples anymore. Is it becoming less popular? Anyway I was really impressed with using the latest version of Fragpipe -w/ skyline integration for dda and Spectronaut 19 for DIA.

Received this with my evotips today. I wish I had a cute very tiny wizard in the lab! I feel like I’d pat his head for good luck , but he would always be grumpy because something was always broken

Way to go Thermo , another fine example of packaging. You know people with degrees in packaging do exist, maybe you should think about hiring some of them ? . admissions.msu.edu/academics/majo…

These 2 I consider required reading. I have read them over 2-3 dozen times over the last decade or 2 . yes I'm old now. I didn't used to be. how did that happen? ionsource.com/tutorial/isoto… ionsource.com/Card/calculate…

DIA-NN 1.9.2 is out! There are some major improvements, please check the release notes github.com/vdemichev/DiaN…

Seems like a good time for a list some of my favorite truly #OpenSource #proteomics tools. In no particular order: 1. Comet - The Sequest algorithm for everyone. github.com/uwpr/comet

This was a little reels video we made for the UC Davis Genome Center Halloween symposium this year. Btw we do know what RNA is , but it was too fragile and got cut 😉 instagram.com/reel/DBkPiC0y7…

Don't forget to register for this upcoming hybrid seminar, join us Nov 6 at 10am-12pm either on Zoom or in-person at GBSF, Auditorium.