Congratulations to Kyra Fetter, Kayla Ly, and Mary Krebs on receiving NSF fellowships and to Katrina Peterson and Ivan Woo on receiving honorable mention!

First co-author paper from the first year of my time here at UW is now live! Always happy to chat about it with anyone who is interested ☺️

💡 From Idea to IP - Free Webinar

Coming April 27: "Idea to IP," a US HUPO panel on turning proteomics research into intellectual property and real-world impact.

📅 Register now us02web.zoom.us/webinar/register/WN_VW3Q...

#USHUPO #Proteomics

As always, we couldn't have done this without our many contributors and collaborators including @shechnerlab.bsky.social's team!

Dr. Herlihy then used DNA O-MAP for some really striking work showing haplotype-resolved proximal proteomics at active and inactive X chromosome X inactivation centers.

When Dr. Herlihy (heading for the job market soon!) joined the lab, he really energized the project to go for more challenging genomic targets, including HOXA and HOXB single-copy loci.

They then coupled this to genomic and proteomics readouts to characterize proteomes at repetitive genomic loci like telomeres.

Drs. Liu and McGann developed DNA O-MAP to target nearly any genomic loci with methods derived from @oligopain.bsky.social's in situ hybridization work.

DNA O-MAP uncovers the molecular neighborhoods associated with specific genomic loci DNA O-MAP enables proximity labeling at specific genomic loci in fixed cells using programmable oligonucleotides, revealing locus-proximal proteomes and chromatin interactions without genetic modifica...

The next iteration of O-MAP targeting genomic loci is now at eLife!!

DNA O-MAP enables proximity labeling at specific DNA loci took a ton of work from many lab members and collaborators, so it's really exciting to wrap up this paper with @oligopain.bsky.social!

elifesciences.org/articles/102...

📢 Publication alert🌶️! Congrats to the @maccoss.bsky.social lab who show the use #Mag_Net for enrichment of EV's from #serum to study the effects of monoclonal antibody therapy on the fate and function of T-cells in people with type 1 diabetes! biorxiv.org/content/10.6...

Congratulations to John R. Yates III, Ruedi Aebersold and Matthias Mann, recipients of the 2026 Canada Gairdner International Award.

Prof. Yates: www.gairdner.org/winner/john-...
Prof. Aebersold: www.gairdner.org/winner/ruedi...
Prof. Mann: www.gairdner.org/winner/matth...

#2026GairdnerAwards

The Proteomics Show is back! Check out chapter one of "All the Parts!"   In this US HUPO sponsored season (thank you!) we're being serious scientists who are asking the big questions of bigtime experts of specif...

News in Proteomics Research blog post | The Proteomics Show is back! Check out chapter one of "All the Parts!" proteomicsnews.blogs...

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#proteomics #prot-other

A CV of grants that were not funded and jobs applied for but not offered

A CV of grants that were not funded and jobs applied for but not offered

A CV of grants that were not funded and jobs applied for but not offered

A CV of grants that were not funded and jobs applied for but not offered

In academia, we're good at talking about successes, but sweep unfunded grants & unsuccessful job apps under the rug. It can be a tough road, filled w/ failure*

For anyone discouraged about the process, here's my failure CV

#AcademicSky 🧪

*None are really failures if you learn from them

Acquisition news for bottom up and top down proteomics with Thermo acquiring Proteinaceous and MSAID.

Proteinaceous was founded in 2016 (possibly earlier) as a spin out from Neil Kelleher’s lab at Northwestern.

MSAID was spun out from Mathias Wilhelm and Bernhardt Kuster’s labs in 2019.

Heard of folks using biotinylated BSA and removing it later on beads. Not sure how well it works though.

@jyates.bsky.social MCing the President’s “Lalapalooza” happening now at #USHUPO2026. Looking forward to learning about alternative methods for proteomics @us-hupo.org

Check out our new work now published in G3! We use proteomics and phosphoproteomics to study how cells cope with tRNA variants that mis-insert amino acids.

Congratulations to #NASmember Benjamin F. Cravatt of @scripps.edu, winner of the 2026 NAS Award in Chemical Sciences for providing foundational insights into enzyme function and dysregulation in disease! Learn more about his discoveries: www.nasonline.org/award/nas-aw... #NASaward #chemistry

AutoPELSA: an automated sample preparation system for proteome-wide identification of target proteins of diverse ligands www.biorxiv.org/cont...

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#proteomics #prot-preprint

Question for the #proteomics community 👇

What should proteomics repositories be doing today (use cases, features, research) that we’re currently missing? Would love your input—RT to reach more voices.
#opendata #mass-spectrometry #proteomics

Discovering Glycosylation-Dependent Protein Function by Thermal Proteome Profiling Protein glycosylation regulates essential cellular processes including protein folding, stability, and cell-cell interactions; however, how aberrant glycosylation impacts protein function and interact...

Congratulations former postdoc @jfhevler.bsky.social (in transit to Roche) and the team on their work using thermal proteome profiling along with glycosylation perturbagens to discover glycan-dependent protein functions at the proteome scale 👏

www.biorxiv.org/content/10.6...

Mapping single-cell diploid chromatin fiber architectures using DAF-seq - Nature Biotechnology Single-molecule chromatin fiber sequencing exposes single-cell-level heterogeneity in the chromatin architecture of individual regulatory elements.

Mapping single-cell diploid chromatin fiber architectures using DAF-seq - @uwgenome.bsky.social @uwdeptmedicine.bsky.social go.nature.com/4rFTAHy

Our latest article is out in Cell !

Together with the Zernicka-Goetz lab, we show that fertilization triggers proteomic asymmetry in mammalian zygotes, giving rise to alpha vs. beta 2-cell blastomeres with distinct developmental potential.

cell.com/cell/fulltex...

I remember fondly how much fun we had with the data analysis, especially when we first identified the consistent proteomic differences between sister blastomeres.

Our results exemplify why direct protein analysis is key to discovering and understanding biological mechanisms.

We are thrilled to announce our 2026 election results. Olga Vitek has been elected to serve as US HUPO's President-Elect, Devin Schweppe as Secretary, and Sasha Singh and Hanno Steen were elected to serve as Members-At-Large on our Board of Directors. Congratulations to all! 🌟 #USHUPO

Woo! Congrats @olgavitek.bsky.social , @dschweppe.bsky.social , Sasha, and Hanno!

Using Experimental Evolution to Correct Mother-Daughter Separation Defects in Brewing Yeast The budding yeast, Saccharomyces cerevisiae, is the workhorse of the brewing industry. Brewers have domesticated a vast array of different strains with traits that complement the beers they wish to br...

Fun new preprint from the lab, headed up by two incredible undergraduate researchers: Using Experimental Evolution to Correct Mother-Daughter Separation Defects in Brewing Yeast. www.biorxiv.org/content/10.1...

I am looking for a PostDoc to join my group at Genentech to drive the development of proteomics technologies to fuel target and therapeutic discovery and development. Check out the link below!

careers.gene.com/us/en/job/20...

Editing stem cell genomes at scale to measure variant effects in diverse cell and genetic contexts Multiplexed assays of variant effect (MAVEs) systematically measure variant function but have been limited to cancer cell lines rather than disease-relevant cell types. We developed saturation genome ...

The effects of genetic variants primarily occur in differentiated cells meaning we need to access these cell types to measure variant effects for most disease genes. We developed saturation genome editing in stem cells (iPSC-SGE) to enable phenotyping in diverse genetic and cell contexts at scale!

Koina: Democratizing machine learning for proteomics research - Nature Communications Koina is an open-source, online platform that simplifies access to machine learning models in proteomics, enabling easier integration into analysis tools and helping researchers adopt and reuse ML mod...

Exited to share our latest work! Out now in @natcomms.nature.com

Koina aims to transform how #proteomics uses machine learning. You no longer need to be a tech wizard to use ML and now can easily run #ML models. Integrated with FragPipe, Skyline and EncyclopeDIA!

www.nature.com/articles/s41...