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Michael MacCoss

@maccoss.bsky.social

Professor of Genome Sciences University of Washington, Seattle. Interested in proteomics and mass spectrometry.

360 Posts1456 Follower745 Folgt
Carl T. Bergstrom@carlbergstrom.com · 3w ago

The American Diabetes Association appears not to have learned their lesson the first time around (below). Now they've blocked publication of an editorial about this event that was slated for publication in the same journal, Diabetes Care, this week. But here it is. You know what to do.

Community Voices: On the Events of the American Diabetes Association 86th Scientific Sessions

The editorial and the seven opinion articles posted here were scheduled for publication on July 13, 2026, in the journal, Diabetes Care. All articles were provided, in advance of the scheduled publica...

zenodo.org

Carl T. Bergstrom@carlbergstrom.com · 2mo ago

From 500 views in the first two months to over 100,000 views in the last few days. The ADA opinion piece that was too scary to be distributed at the ADA meeting has gone full Streisand. Y'all are doing the Lord's work.

Download graph, topping at 103,071 total views as of a few minutes ago.
Reese Richardson@reeserichardson.bsky.social · 2mo ago

The Thermo Fisher situation keeps getting worse. We've now collected 450+ problematic images presented as verification data in TF's antibody catalog. This includes: 🖌️ Dozens more images with duplications or painting 🖨️ Hundreds of blots that all share the same background (behold slideshow below)

Kermit Murray@kkmurray.bsky.social · 3mo ago

(BioRxiv All) A quantitative proteomics dataset for assessment and prediction of low dose X-ray radiation exposure in mice.: Ionizing radiation induces molecular responses that may be used to estimate exposure when physical dosimeters are unavailable. Here we present two… #BioRxiv #MassSpecRSS

A quantitative proteomics dataset for assessment and prediction of low dose X-ray radiation exposure in mice.

Ionizing radiation induces molecular responses that may be used to estimate exposure when physical dosimeters are unavailable. Here we present two large-scale proteomics datasets generated from mouse dorsal skin punch samples collected following controlled X-ray exposures spanning multiple doses, dose rates, and post-exposure time points. Experiment 1 comprised 96 samples (including 16 reference samples) collected 6 days after exposure to 0-75 cGy delivered at either 30 or 300 cGy/min. Experiment 2 comprised 936 samples (including 236 reference samples) exposed to 0-100 cGy at either 3 or 28 cGy/min dose rates and harvested between 7 and 150 days post-exposure. All samples were processed using a standardized workflow involving automated bead-based digestion and data-independent acquisition mass spectrometry. The datasets include multiple pooled reference sample types, process controls, and system suitability standards ensuring high quality data. All data presented are available via ProteomeXchange at several levels of processing, from raw files through normalized peptide- and protein-level abundance matrices suitable for biomarker discovery and machine learning applications. This dataset will facilitate generation of new insights into the biological changes and molecular signatures resulting from X-ray exposure in mice and may also help inform future studies in humans.

dlvr.it

Lukas Käll@lukaskall.bsky.social · 4mo ago

We're hiring! Two fully funded PhD positions are open in my group at KTH/SciLifeLab, both in the intersection between machine learning, mass spectrometry, and proteomics. One EU MSCA-funded, one DDLS. Details below 👇

Carl T. Bergstrom@carlbergstrom.com · 4mo ago

Our PhD student Kennedy Orwa, who studies applications of AI to health care, was hastily deported today to Kenya along with his 13-year-old son without opportunity to speak to legal counsel. King 5 reports that he held a valid visa that was rescinded without explanation.

UW graduate student deported through SEA as protesters demand answers

A union representing University of Washington graduate student workers says Kennedy Orwa’s student visa was rescinded without explanation.

king5.com

Lindsay K Pino@lindsaykpino.com · 4mo ago

Getting the ol' grad school gang back together with Carafe2 -- Bo Wen (@maccoss.bsky.social and Bill Noble) and @jspaezp.bsky.social (@willfondrie.com at @talusbio.bsky.social) teamed up for essentially some late night hackathons to build out Carafe for @brukercorporation.bsky.social timsTOF data.

PastelBio@pastelbio.bsky.social · 4mo ago

Carafe2 enables high quality in silico spectral library generation for timsTOF data-independent acquisition proteomics www.biorxiv.org/cont... --- #proteomics #prot-preprint

Kermit Murray@kkmurray.bsky.social · 4mo ago

(BioRxiv All) Serum proteomics reveals distinct phenotypic signatures to IL-6 blockade between two immunotherapies: A recent clinical study tested the effects of two different monoclonal antibodies (mAbs) (siltuximab, anti-IL6; tocilizumab, anti-IL6R) on the fate and function… #BioRxiv #MassSpecRSS

Serum proteomics reveals distinct phenotypic signatures to IL-6 blockade between two immunotherapies

A recent clinical study tested the effects of two different monoclonal antibodies (mAbs) (siltuximab, anti-IL6; tocilizumab, anti-IL6R) on the fate and function of T-cells in people with type 1 diabetes. While both mAbs affect the response of T-cells to stimulation, they have very different, sometimes opposing mechanisms. Here, we use mass-spectrometry based proteomics to analyze longitudinal serum samples (baseline and two weeks post-treatment) from 20 clinical trial participants to examine the effects of siltuximab and tocilizumab on extracellular vesicles. To accomplish this, serum samples were enriched for extracellular vesicles with Mag-Net and analyzed by LC-MS/MS to identify significantly differentially abundant protein groups and pathways. Proteome analysis confirmed highly reproducible measurements across multiple draw dates. In total, we quantified 3300 protein groups of which 46 protein groups had significantly altered abundance after mAb treatment. Tocilizumab altered pathways associated with proteostasis (neddylation) and pre-notch transcription and translation. Siltuximab altered FCGR activation pathway members. In addition, quantitation of the monoclonal antibody therapies themselves enabled the measurement of the correlation between drug amounts and impacted proteins. Taken together, this work demonstrates the utility of the Mag-Net method to evaluate the impacts of therapeutic interventions on serum extracellular vesicles.

dlvr.it