Had a great time at the GLYCOSCIENCE NL 2025 meeting last Friday—diverse and fascinating glycosylation topics.
I also shared a sneak peek of work with the brilliant Nika Šimičić and Noortje de Haan. More soon—stay tuned for our cell-surface glycoproteome study in colorectal cancer cell lines!
Thank you very much @sinzandrea.bsky.social ! It was a pleasure to have you at my PhD defense!
Thank you for your support through the finishing steps of this cycle! Looking forward to the new cool things this mass spec nerd can get its hands on :)
Most carbonylation sites were observed in human serum albumin (HSA) at few modification hotspots, showing selectivity in modification and alluding to the antioxidant potential of HSA. Deeper proteome coverage will have to be achieved by exploring depletion techniques in the future.
No significant differences were found with respect to site abundance in between healthy individuals and patients diagnosed with rheumatoid arthritis. However, these PTMs could be detected in the majority of donors, highlighting an important milestone in the robust detection of protein carbonylation.
The combined used of IMS, DDA, DIA, and peptide centrict analysis with Skyline was essential for robust detection and discovery of unknown carbonylation products. All filtered Skyline documents and MS data can be found in: panoramaweb.org/HumanSerumCa...
Happy to finally share my last contribution of my PhD work on protein carbonylation. These diverse and low abundant non-enzymatic PTMs have strong implications in protein structure. Here we show how we managed to consistently detect them in serum of 68 individuals.
pubs.acs.org/doi/10.1021/...
Come on down! Two posters for the price of one! MP224/225 to get an overview of the @talusbio.bsky.social transcription factor atlas with Daniele Canzani and a vignette of applying the platform to mechanism of action studies with Julia Robbins. #ASMS2025
If there any #Sciex decision makers here on Bluesky - I urge you to reconsider. Skyline/Proteowizard support is not only important for your customers using these tools, but it also benefits other bioinformatics efforts that depend on these tools.
Beyond the 2025 Letters of Support for Skyline:
skyline.ms/project/home...
As a consultant, it’s easy to recommend an MS vendor that contributes to Skyline.
Currently: Agilent, Bruker, Sciex, Shimadzu, Thermo, and Waters
Their support ensures that there is a vendor-neutral data analysis option.
Check out our upcoming webinar! In this US HUPO X ABRF crossover event, you'll learn about where AI is currently used in proteomics and where it may be transformative in the future. Register now: ow.ly/tKB750VB1PN 🧪
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
I’m running a Skyline metabolomics “bite” as part of the UC Davis Bits and Bites series.
It covers four tutorials and is a great way to immerse yourself into Skyline.
24th April, 9 am - 1 pm PT. $175.
Covers QQQ, high res, cal curves, and CE optimisation.
metabolomics.ucdavis.edu/bits-bites--03
Do you have a passion for research software and believe in the power of Open Science to drive advancements in healthcare? If so, we are looking for you! www.lumc.nl/en/about-lum...
If you're looking at peptide differential expression. Skyline is insanely powerful , especially how it seamlessly calculates peak areas across different conditions and makes heatmaps and volcano plots
I would bet on MZmine for performance (I keep postponing getting to it). But the biggest challenge might be the learning curve and requirement of scripting to combine output with IDs (e.g. proteomics applications).