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maccoss.bsky.social
Michael MacCoss
@maccoss.bsky.social
1.4K followers 740 following 330 posts
Professor of Genome Sciences University of Washington, Seattle. Interested in proteomics and mass spectrometry.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 1
The Mag-Net paper is out! We've now put 1000s of plasma samples through this protocol and we know others have too. We've used it to study dozens of diseases. Looking forward to seeing what others apply this towards. The preprint already has >39 citations. www.nature.com/articles/s41...
Enrichment of extracellular vesicles using Mag-Net for the analysis of the plasma proteome - Nature Communications
Authors report MagNet, a plasma extracellular vesicle (EV) enrichment strategy using magnetic beads. Proteomic interrogation of this plasma EV fraction enables the detection of proteins that are beyon...
www.nature.com
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Reposted by Michael MacCoss
cashwood.proteaglyco.com
Chris Ashwood @cashwood.proteaglyco.com · 16h
Very excited to kick off the annual Skyline Online 2025 Small Molecule course with a keynote lecture by Gary Patti @gjpattij.bsky.social.
Showing how his lab and collaborators are advancing mass spectrometry to achieve parity with sequencing techs, supported by Skyline!
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Reposted by Michael MacCoss
thatmassspecguy.bsky.social
Bhavesh Parmar @thatmassspecguy.bsky.social · 2d
Gearing up for what promises to be an exciting week ahead @crg.eu #CRGtraining #teamMassSpec
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · 23d
Proteomics Webinar: DIA with FragPipe, DIA-NN, and Skyline
Presenters: Eduard Sabidó and Brendan MacLean
When: Tuesday, September 16, 8am (Pacific Time)
Register Now ... skyline.ms/project/home...

#massspec #proteomics
Start Page: /home/software/Skyline/events/2025 Webinars/Webinar 26
skyline.ms
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · 28d
If those professors are anything like me they probably need the most teaching.
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Reposted by Michael MacCoss
kkmurray.bsky.social
Kermit Murray @kkmurray.bsky.social · 29d
Staff scientist position in the Mass Spec Lab at the LSU Health New Orleans Neuroscience Center of Excellence lsuhsc.peopleadmin.com/postings/20349
STAFF SCIENTIST OR STAFF SCIENTIST SENIOR
We are seeking a highly motivated PhD Chemist to join our laboratory as a Staff Scientist or Staff Scientist Senior and work on lipidomic and LC- MS/MS. Those with experience or willing to be trained ...
lsuhsc.peopleadmin.com
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Aug 27
I would argue this is the same for most proteomics. There are definitely a lot of challenges with experimental design and I think the field in general struggles to understand and how to minimize confounders.
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Reposted by Michael MacCoss
kkmurray.bsky.social
Kermit Murray @kkmurray.bsky.social · Aug 14
(J Proteom Res) [ASAP] Fast and Memory-Efficient Searching of Large-Scale Mass Spectrometry Data Using Tide: Journal of Proteome ResearchDOI: 10.1021/acs.jproteome.5c00297 #MassSpecRSS
[ASAP] Fast and Memory-Efficient Searching of Large-Scale Mass Spectrometry Data Using Tide
Journal of Proteome ResearchDOI: 10.1021/acs.jproteome.5c00297
dlvr.it
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Reposted by Michael MacCoss
hupo-org.bsky.social
HUPO @hupo-org.bsky.social · Aug 1
🚨 Webinar Alert! 🚨

Carafe enables high-quality in silico spectral library generation for data independent acquisition proteomics

📅 August 5 - 19:00 Seattle / August 6 - 10:00 Beijing

💡 Don't miss this chance to learn from the experts

#Proteomics
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Reposted by Michael MacCoss
moweiz.bsky.social
Mowei Zhou @moweiz.bsky.social · Aug 1
Our CNHUPO OES webinar 7 will be from Bo Wen at MacCoss Lab & Noble Lab at University of Washington, hosted by Wenfeng Zeng at Westlake University (10AM on Aug 6 UTC+8). Mark your calendar to learn more about DIA proteomics! @maccoss.bsky.social @us-hupo.org
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 31
Maybe they mean multi-protein profiling?
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 30
Just saw it now back to back.
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Reposted by Michael MacCoss
pastelbio.bsky.social
PastelBio @pastelbio.bsky.social · Jul 29
Improvements to Casanovo, a deep learning de novo peptide sequencer www.biorxiv.org/cont...

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#proteomics #prot-preprint
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 30
I believe that academic-industry partnerships accelerate science. In the US, the Bayh-Dole Act incentivized the commercialization of discoveries made with govt funds. This is credited with the creation of the US biotech industry. Even better when this feeds back to provide $$ for academic research.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 29
There is pressure for every science job and there can br a COI for job preservation, promotion, helping a colleague, writing a reference letter, etc... We should acknowledge our COIs and ask for guidance in managing them.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 29
I don't think there is a difference. A core lab with a service agreement is under a ton of pressure to deliver results. A CRO performing an analysis on a large contract. A startup struggling to get its next round of VC funding. A PI wanting one more high impact paper for promotion.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 29
I can say that our lab is currently funded mostly (>75%) from NIH, DOE, IARPA, etc... funds. Other than MS core facilities, I believe this is pretty standard. Most of our non-federal funds comes to support the Skyline and Pwiz projects and that supports ~40% of that project.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 29
Asking about total compensation is like asking someone to disclose their salary or the amount of revenue for their company on social media. Even something that I'd regularly discuss with a colleague or is public knowledge, would be completely inappropriate to discuss here.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 29
One thing to keep in mind when you say it is a "joke" is that there are real trainees who have worked hard to get these projects done. They worked hard because they believed in the project and have a manuscript we are proud of. These jokes suggest something nefarious happened.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 28
I'm not sure what you think are in NDAs. I don't need to sign a document to know it isn't ok to share undisclosed information that isn't mine to share. We work hard to publish what we discover during the collaboration, share data, software, etc.. We want people to be able to reproduce what was done.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 28
It'd be good to understand what you think should be done differently. Most of us try to be transparent w COIs. There are management plans in place by our institutions that get assessed yearly by the compliance office & with each grant. There are also policies for major purchases, trainees, etc...
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 28
I think ASMS, HUPO, ABRF, MSACL, etc... do a good job at recognizing the role instrument vendors and reagent companies play in our community while also trying to recognize and manage COIs. There are rules about transparency and I believe most people take them seriously. There are obviously outliers.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 28
A large percent of the ASMS membership (possibly a majority?) work for, have research sponsored by, or collaborate with, a for profit entity -- including yourself. In the US, non-federal sources of funding may become a larger percentage of academic research support in the near future.
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Reposted by Michael MacCoss
fireinlab.bsky.social
Emma Doud @fireinlab.bsky.social · Jul 25
Success! We've now run almost 2000 mouse cortex and plasma samples through this assay so expect more publications referencing it very soon. Much thanks to the Skyline team and @maccoss.bsky.social #modelad #teammassspec #proteomics www.tandfonline.com/doi/full/10....
Analytical development and application of a targeted liquid chromatography-tandem mass spectrometry assay for chimeric aducanumab
A sensitive and specific liquid chromatography-tandem mass spectrometry assay was developed for the quantification of chimeric aducanumab (chAdu), a therapeutic antibody targeting pathological amyl...
www.tandfonline.com
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 25
Agreed, DIANN v1.8.1 is now ~8 releases ago and the FDR control has definitely improved since. Happy to hear that Bo's manuscript helped motivate the improvement in the algorithms.
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maccoss.bsky.social
Michael MacCoss @maccoss.bsky.social · Jul 11
Yeah we've done some of that in the brain and lens. We've relied a lot on an experienced person to pick the chromatographic peaks. Those sorts of isomer analysis will definitely benefit from the ability to predict the RT using AI - there is very little alternate with isomers.
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