Great work by @dwendscheck.bsky.social from our lab and everyone else involved! This is a collaborative effort from many labs, which led to the identification and characterization a new (and important) Peroxin in more than 20 years!!
👏 Well deserved!
Happy to share our recent publication where we present the most up to date membrane protein inventory of #Glycosomes and identified the long sought trypanosomal PEX15.
Thanks to everyone involved for this amazing collaborative effort to combine #proteomics with #functional #analysis.
Be courageous to be creative.
One of the most significant and challenging projects of my career so far. PepCentric: a scalable computational platform utilizing novel 2-D fragment indexing for rapid peptide-centric searches, enabling proteogenomics searches against billions of spectra in seconds. www.biorxiv.org/content/10.1...
Please don’t stop sharing and posting your science because of the current attack on it, it is still valuable and reminds us what the fight is for
Had a great time keeping up with the "state-of-the-art" #Thermo #Astral MS instrument and analysis! 👍 Thanks to Michal!
We go deeper into the #proteome, faster than ever!!
Exciting times ahead.. ☀️
In 2021, we introduced plexDIA: plexdia.slavovlab.net
It enabled many studies, but suitable tags have remained a limitation.
Soon, @parallelsq.bsky.social will introduce tags that improve multiplexing, sensitivity & coverage, helping realize huge potential pubs.acs.org/doi/10.1021/...
Stay tuned!
Foldseek-Multimer—now published in @naturemethods.bsky.social—our fast multimer search tool, enables complex comparisons against the full PDB in seconds. It comes with BFMD, a collection of 300K+ predictions gathered from community projects.
📄 nature.com/articles/s41...
🌐 search.foldseek.com
Scientists have created an actual treatment for prions, the cause of Creutzfeldt–Jakob disease in humans, chronic wasting disease in deer, & mad cow disease.
"Brainwide silencing of prion protein by AAV-mediated delivery of an engineered compact epigenetic editor". #ShareGoodNewsToo
The good idea comes when one person feels comfortable enough to say something that might make them look stupid and their friend is open enough to recognize its potential.
I could not be more thrilled to announce the Nature Methods @naturemethods.bsky.social Method of the Year is Spatial Proteomics! Please see our editorial as a roadmap to the fantastic content in this special issue! www.nature.com/articles/s41...
After long-time review, #nanoSPLITS is finally published. I am deeply grateful to my colleagues who made this work possible, especially @cajunscience.bsky.social. I am also grateful to the support of our single-cell proteomics community during the peer review on Nature Communication!
Very important point raised by @rongfan8.bsky.social here:
www.nature.com/articles/s41...
I think we are slowly getting there. At least one step at a time, thanks to technological feats gained in MS community. For e.g recent nanoSPLITS method by @nanopots.bsky.social
The future is exciting!
Scared to share this after 10 freaking years of waiting, but here we go: We found that temperature *perception* can change the biology of the next generations, even when “it’s just in the parents' head”. Read how C. elegans neurons control epigenetic inheritance!
www.biorxiv.org/content/10.1...
Could one envision a synthetic receptor technology that is fully programmable, able to detect diverse extracellular antigens – both soluble and cell-attached – and convert that recognition into a wide range of intracellular responses, from gene expression and real-time fluorescence to modulation..
Great to see, that @altmetric.com is now also tracking and reporting on activity on @bsky.app. This is a great further step to make bluesky the key social media network for science. (1/2) www.altmetric.com/de...
Related - there are whole high profile “protein atlases” based on transcript expression that are clearly inaccurate - proteomicsnews.blogspot.com/2024/06/re-r...
More recently in @rjdlab.bsky.social, we have discovered a new human peroxisomal biogenesis protein and revealed a new paradigm in peroxisomal protein import (www.biorxiv.org/content/10.1...)
This diagram was made by Christine Liu, PhD - creator of two photon art @christineliuart.bsky.social
I think you’ll love it :) @odedrechavi.bsky.social
My perspective on CVs for DIA-based #proteomics is out in JPR
It explores how normalisation, the CV formula and software parameters affect the outputs. It suggests parameters to use for biological and technical studies and provides an R package to calculate CVs.
doi.org/10.1021/acs....
We recently benchmarked multiple packages for #proteomics differential expression analysis. The biggest conclusion is that major differences among tools are only observed in lower-quality datasets. When you see a benchmark, first look into the data that was used. pubs.acs.org/doi/10.1021/...
✨ Exciting news! This year, @pride-ebi.bsky.social introduced a new way to transfer data using the Globus protocol! 🚀
Check out this fantastic 15-minute intro video by @deeptijkundu.bsky.social, PRIDE's lead data curator:
📹 www.youtube.com/watch?v=VRNu...
#DataTransfer #Proteomics #Globus #Faster
RFam design method
Activity characterization
Characterization of A1 activity.
The Baker lab seems serious about moving into enzyme design.
Here, they train a flow-matching model that can be conditioned by atomic coordinates and then use it to design enzymes based on active site geometry specified by density functional theory.
www.biorxiv.org/content/10.1...
News in Proteomics Research | Get ultralow flow rate nanoLC with ONE pump?? proteomicsnews.blogs...
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#proteomics #prot-other
Autoprot: Processing, Analysis and Visualization of Proteomics Data in Python www.biorxiv.org/cont...
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#proteomics #prot-preprint
