Chris McGann
@chrismcgann.bsky.social
š¤ 168
š„ 177
š 7
Postdoctoral Research Fellow, Harvard Medical School & Dana-Farber Cancer Institute
reposted by
Chris McGann
Devin Schweppe
4 days ago
More exciting work from the lab! Along with
@maccoss.bsky.social
(
@uwgenome.bsky.social
) and Gary Churchill (
@jax.org
), Dr. Katarina Vlajic's tour de force multi-omics profiling uncovered molecular signatures of healthy splenic aging!
www.biorxiv.org/content/10.6...
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Chris McGann
Devin Schweppe
7 days ago
Excited to see
@riddhiman.bsky.social
's gastruloid multiomics paper out now at Nature Cell Bio! Riddhiman used proteomics, phosphoproteomics, and RNAseq to profile stem-cell-derived embryo models to identify protein, complex, and signaling regulators of development.
www.nature.com/articles/s41...
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The proteomic landscape and temporal dynamics of human and mouse gastruloid development - Nature Cell Biology
Garge et al. use experimentally matched mass spectrometry and RNA-sequencing to quantify proteins, phosphosites and transcripts across four key stages of human and mouse gastruloid development.
https://www.nature.com/articles/s41556-026-01937-5
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reposted by
Chris McGann
UW Genome Sciences
18 days ago
Genetic diversity and regulatory features of human-specific NOTCH2NL duplications
pubmed.ncbi.nlm.nih.gov/41916274/
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Genetic diversity and regulatory features of human-specific NOTCH2NL duplications - PubMed
NOTCH2NL (NOTCH2-N-terminus-like) genes arose from ape-specific chromosome 1 segmental duplications implicated in human brain cortical expansion, including an incomplete NOTCH2 gene. Genetic character...
https://pubmed.ncbi.nlm.nih.gov/41916274/
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Chris McGann
23 days ago
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 āŗļø
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Super stoked to see the final version of O-MAP out!
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24 days ago
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Chris McGann
Kermit Murray
about 1 month 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 functionā¦
#BioRxiv
#MassSpecRSS
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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.
http://dlvr.it/TRnXMP
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reposted by
Chris McGann
Nick Riley
about 1 month ago
The complexity of glycoproteomics data creates a bottleneck in data interpretation and communication. We (
@timveth.bsky.social
,
@riley-research.bsky.social
) built GlycoDiveR as a step toward bridging gaps between search-engine output and biological interpretation through
#glycotime
visualizations.
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reposted by
Chris McGann
Keri Backus
3 months ago
Excited to share our new paper and lipid- and protein-directed photocatalytic labeling method (POCA) just out in
@natchembio.nature.com
.
tinyurl.com/2kcxuvvv
. Big congrats to first author Andrew Becker and the whole team for launching our lab into the wild world of singlet oxygen interactomics.
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RTLS!
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3 months ago
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Chris McGann
Matthew Berg
3 months ago
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.
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reposted by
Chris McGann
Emmajay Sutherland
4 months ago
2025 ended with this paper being accepted by Analytical Chemistry! š Please check out our article in its new home and learn how these multinanoparticle protein coronas grant us a deeper insight into the glycoproteome of different biofluids:
pubs.acs.org/doi/10.1021/...
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reposted by
Chris McGann
US HUPO
5 months ago
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! š
#USHUPO
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reposted by
Chris McGann
UW Genome Sciences
6 months ago
Congratulations to Mike MacCoss on receiving the Donald F. Hunt Distinguished Contribution in Proteomics Award from US HUPO!
us-hupo.org/Distinguishe...
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US HUPO - Distinguished Contribution Award
https://us-hupo.org/Distinguished-Contribution-Award
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reposted by
Chris McGann
UW Genome Sciences
6 months ago
Congratulations to Bill Noble on receiving the 2026 Gil Omenn Computational Proteomics Award from US HUPO!
us-hupo.org/Computationa...
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US HUPO - Computational Proteomics Award
https://us-hupo.org/Computational-Proteomics-Award
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reposted by
Chris McGann
Ed Huttlin
6 months ago
If youāre at
#HUPO2025
, be sure to stop by my poster and learn about the latest developments in the BioPlex project!
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reposted by
Chris McGann
Alfonso Martinez Arias
6 months ago
More
#gastruloid
studies. Benchmarking correlations between RNA/proteins w/ acquiring information @ phosphorylation across
#mouse
&
#human
www.biorxiv.org/content/10.1...
Also looking at
#Disease
modelling. Fantastic
#TourDForce
Valuable bench marking and insight
@dschweppe.bsky.social
#SCBEMs
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reposted by
Chris McGann
Michael MacCoss
6 months ago
Fantastic project led by
@bo-wen.bsky.social
. Excited to see the future uses of AI and transfer learning in proteomics.
#massspec
#proteomics
www.nature.com/articles/s41...
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Carafe enables high quality in silico spectral library generation for data-independent acquisition proteomics - Nature Communications
Accurate spectral libraries are essential for analyzing data-independent acquisition (DIA) proteomics data. Here, the authors present Carafe, which trains on DIA data to build experiment-specific spec...
https://www.nature.com/articles/s41467-025-64928-4?utm_source=rct_congratemailt&utm_medium=email&utm_campaign=oa_20251106&utm_content=10.1038/s41467-025-64928-4
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reposted by
Chris McGann
Michael MacCoss
6 months ago
Excited to see this published in JPR. For years I've wanted a simple way to standardize the signal between instruments. We use the precision of an intraspectrum ratio to assess the relationship between the reported signal and the number of ions.
pubs.acs.org/doi/10.1021/...
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Evaluation of a Prototype Orbitrap Astral Zoom Mass Spectrometer for Quantitative ProteomicsāBeyond Identification Lists
Mass spectrometry instrumentation continues to evolve rapidly, yet quantifying these advances beyond conventional peptide and protein detections remains challenging. Here, we evaluate a modified Orbit...
https://pubs.acs.org/doi/10.1021/acs.jproteome.5c00593
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reposted by
Chris McGann
Emmajay Sutherland
7 months ago
Can nanoparticles help us probe the glycoproteome? The new pre-print from
@riley-research.bsky.social
seeks to answer this question using the Proteograph technology from Seer Inc. Check out this lovely study on glycoproteins NP-enriched from biofluids here:
chemrxiv.org/engage/chemr...
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reposted by
Chris McGann
Mike Goodwin
8 months ago
pubs.acs.org/doi/10.1021/...
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Real-Time Instrument Control across Multiple Orbitrap Platforms through a Single Software Interface
Applications using real-time spectral analysis and real-time instrument control have emerged in recent years as powerful tools to improve the capabilities and sensitivity of mass spectrometers. Softwa...
https://pubs.acs.org/doi/10.1021/acs.jproteome.5c00269
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reposted by
Chris McGann
Devin Schweppe
8 months ago
Real-time API control of mass specs has been hard to get started (C#, VS, etc). Mike Hoopmann's recent work makes dev easier & more open!: Nova - lightweight dev library
schweppelab.github.io/Nova/
pubs.acs.org/doi/full/10....
Helios - a unified instrument API now @ JPR
github.com/SchweppeLab/...
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After five great years, my journey in the Schweppe Lab and at UW has come to a close. Huge thanks to
@dschweppe.bsky.social
and all the amazing labmates for making graduate school such a wonderful experience. Extremely grateful for the memories and all the help I received along the way.
8 months ago
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reposted by
Chris McGann
Kermit Murray
9 months ago
(JASMS) [ASAP] Dynamic Quadrupole Selection to Associate Precursor Masses with MS/MS Products in Data-Independent Acquisition: Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00110 (RSS)
#MassSpecRSS
#JASMS
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[ASAP] Dynamic Quadrupole Selection to Associate Precursor Masses with MS/MS Products in Data-Independent Acquisition
Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00110
http://dlvr.it/TMPMDT
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reposted by
Chris McGann
PastelBio
9 months ago
News in Proteomics Research blog post | Nova! Build all the mass spec tools!
proteomicsnews.blogs...
---
#proteomics
#prot-other
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Chris McGann
IonOpticks
9 months ago
"I invite all researchers to enter the glycoproteomics field and join the battle.ā With the complexity of glycoproteomics and how little we still know, Tim Veth puts out a rallying cry to speed up development in this promising field. Learn more about Tim & read our discussion:
bit.ly/3IXpo8B
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Thousands of forms, one protein: how Tim Veth is deciphering the complex language of Glycans
Tim Veth, a postdoctoral researcher working with Prof. Nicholas M.
https://bit.ly/3IXpo8B
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Chris McGann
PastelBio
9 months ago
Nova: A Library for Rapid Development of Mass Spectrometry Software Applications
pubs.acs.org/doi/10....
---
#proteomics
#prot-paper
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reposted by
Chris McGann
Maitreya Dunham
9 months ago
Announcing the yEvo Mutation Browser, a Shiny app for visualizing and exploring sequencing data from experimental evolution and genetic screens. This is the latest from our
@yevolab.bsky.social
high school teaching & research project and led by my grad student Leah.
www.biorxiv.org/content/10.1...
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The yEvo Mutation Browser: Enhancing student understanding of experimental evolution and genomics through interactive data visualization
Experimental evolution is a powerful method for studying the relationship between genotype and phenotype by observing how populations genetically adapt to controlled selective pressures. In educationa...
https://www.biorxiv.org/content/10.1101/2025.07.18.665463v1
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Chris McGann
Michael MacCoss
10 months ago
If you asked me 5 years ago if it would be possible to use a de novo tool on DIA data, I would have thought it would only exist in science fiction. Love being proved wrong. Great work from Justin Sanders.
#proteomics
#massspectrometry
www.nature.com/articles/s41...
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A transformer model for de novo sequencing of data-independent acquisition mass spectrometry data - Nature Methods
Cascadia is a mass spectrometry-based de novo sequencing model that uses a transformer architecture to handle data-independent acquisition data and achieves substantially improved performance across a...
https://www.nature.com/articles/s41592-025-02718-y
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Thanks so much
@dschweppe.bsky.social
!!! Couldnāt ask for a better place to do graduate school than the Schweppe Lab!
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10 months ago
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reposted by
Chris McGann
Devin Schweppe
10 months ago
Huge congratulations to
@chrismcgann.bsky.social
who passed his PhD dissertation defense yesterday with flying colors!! Dr. McGann was the labās first PhD student and now first graduate! So excited and proud of all of the things heās accomplished!
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reposted by
Chris McGann
Devin Schweppe
11 months ago
Comet's open-source Fragment-Ion Indexing work is live at JPR (
@acs.org
).
@chrismcgann.bsky.social
, Jimmy Eng and Erik Bergstrom showed how Comet could be dramatically sped up to keep pace with modern instrumentation and increasing sample sizes:
pubs.acs.org/doi/full/10....
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Chris McGann
Nature Methods
11 months ago
Assessing error control is fundamental in mass spectrometry-based proteomics.
@bo-wen.bsky.social
@maccoss.bsky.social
@urikeich.bsky.social
et al introduce a theoretical foundation for entrapment along with a method for more accurate evaluation of FDR control.
www.nature.com/articles/s41...
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Assessment of false discovery rate control in tandem mass spectrometry analysis using entrapment - Nature Methods
A theoretical foundation for entrapment methods is presented, along with a method that enables more accurate evaluation of false discovery rate (FDR) control in proteomics mass spectrometry analysis p...
https://www.nature.com/articles/s41592-025-02719-x
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reposted by
Chris McGann
Devin Schweppe
11 months ago
Congrats to
@chrismcgann.bsky.social
(and the other awardees) for receiving an
@asms.org
Graduate Student Travel Award!! Photo credit to Katarina for capturing the moment!
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reposted by
Chris McGann
Devin Schweppe
11 months ago
Thanks to everyone who came out to the Real time MS bioinformatics hub yesterday! Great to chat about current and new directions! Hereās some action shots of Mathieu and Mike leading the discussion.
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reposted by
Chris McGann
Nick Riley
11 months ago
#ASMS2025
offers great evening workshops. If you are interested in real-time decision-making during MS data acquisition or still looking for one to join, consider the Real time Mass Spectrometry Workshop featuring speakers and panelists Sarah Sipe, Aarthie Senathirajah, and Manuel Peris Diaz.
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reposted by
Chris McGann
PastelBio
12 months ago
Nova: A library for rapid development of mass spectrometry software applications
www.biorxiv.org/cont...
---
#proteomics
#prot-preprint
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reposted by
Chris McGann
UW Genome Sciences
about 1 year ago
A transformer model for de novo sequencing of data-independent acquisition mass spectrometry data
www.biorxiv.org/content/10.1...
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A transformer model for de novo sequencing of data-independent acquisition mass spectrometry data
A core computational challenge in the analysis of mass spectrometry data is the de novo sequencing problem, in which the generating amino acid sequence is inferred directly from an observed fragmentat...
https://www.biorxiv.org/content/10.1101/2024.06.03.597251v1
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impressive work!
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about 1 year ago
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Chris McGann
JAMA
over 1 year ago
This JAMA Insights explores the capability of proteomics to analyze thousands of proteins in patient samples, which could improve cliniciansā understanding of and ability to treat a wide range of diseases.
ja.ma/4jvNHbP
#MedSky
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Molecular Phenotyping With Proteomics
This JAMA Insights explores the capability of proteomics to analyze thousands of proteins in patient samples, which could improve cliniciansā understanding of and ability to treat a wide range of dise...
https://ja.ma/4jvNHbP
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reposted by
Chris McGann
Chris Ashwood
over 1 year ago
This prototype 908 devices SPE-CZE column and emitter combination looks to be the separation method to beat for localising phosphosites on multiply phosphorylated peptides.
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Chris McGann
bioRxiv SysBio
over 1 year ago
SPE-CZE-MS quantifies zeptomole concentrations ofphosphorylated peptides
https://www.biorxiv.org/content/10.1101/2024.12.07.627347v1
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Chris McGann
Devin Schweppe
over 1 year ago
Thatās a wrap, weāve uploaded our version of record for the large scale PISA work led be Jon & co. to
@elife.bsky.social
:
elifesciences.org/articles/95595
Thanks to the reviewers for helping us improve the manuscript, enjoyed the process of developing this resource.
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Large-scale characterization of drug mechanism of action using proteome-wide thermal shift assays
An approachable framework for the scalable implementation of proteome-wide thermal shift assays to assess drug mechanisms of action.
https://elifesciences.org/articles/95595?utm_source=content_alert&utm_medium=email&utm_content=fulltext&utm_campaign=13-November-24-elife-alert
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reposted by
Chris McGann
Nick Riley
over 1 year ago
Our Autonomous Dissociation-type Selection (ADS) method is published in JPR! This intelligent data acquisition approach uses RTLS to make fragmentation decisions as data is collected to improve glycoproteome sampling. Congrats to all involved!
#glycotime
#TeamMassSpec
pubs.acs.org/doi/10.1021/...
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Autonomous Dissociation-type Selection for Glycoproteomics Using a Real-Time Library Search
Tandem mass spectrometry (MS/MS) is the gold standard for intact glycopeptide identification, enabling peptide sequence elucidation and site-specific localization of glycan compositions. Beam-type col...
https://pubs.acs.org/doi/10.1021/acs.jproteome.4c00723
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