Phil W

It looked more like Spyder-ghetti hanging off of the value...

Just let AI try to pry the Reviewer 2 title from my cold, dead hands...

Loss-less Nano-fractionator for High Sensitivity, High Coverage Proteomics Recent advances in mass spectrometry (MS)-based proteomics now allow very deep coverage of cellular proteomes. To achieve near-comprehensive identification and quantification, the combination of a first HPLC-based peptide fractionation orthogonal to ...

You probably forgot about this one:
pmc.ncbi.nlm.nih.gov/articles/PMC...

You have got to be chitin me, another octome paper? The Web of Science can't wait.

a spongebob squarepants scene with a mailbox and a flower ALT: a spongebob squarepants scene with a mailbox and a flower

@asms.org has sent out ballots for the BOD election. There is a strong slate of candidates this year. I know from other organizations only 20-25% of the membership vote in society elections so make your voice heard & vote. It took me 15 seconds to vote. I’m asking for your vote as VP for Programs.

What do you expect from a field where "using something new" is vastly more important than "learning" something new?

It must be the start of Land Grab Season! Maybe it is now part of Black Friday deals?

Chip, a very handsome young cat, is napping next to my legs on the bed. We are both on our backs with our feet up.

Chip and I want to remind everyone to put your feet up, recharge the batteries, and sleep through black Friday.

a young boy laying in bed with the words " i see dead people " above his head Alt: a young boy laying in bed with the words " i see dead people " above his head

I see modified peptides. All of the time. They are everywhere.

proteomicsnews.blogspot.com/2025/11/pros...

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...

I am sure it would be better to use XML markdown where the text inside the tags was binhex. The tag labels should all be a controlled vocabulary of acronyms. The schema should guarantee that the resulting file will always be 1% larger than the free space on the storage volume...

GitHub - pwilmart/mouse_liver_TMT_reanalysis: Reanalysis of large-scale TMT mouse liver studies (2015 and 2021) from the Gygi Lab. Reanalysis of large-scale TMT mouse liver studies (2015 and 2021) from the Gygi Lab. - pwilmart/mouse_liver_TMT_reanalysis

Are you curious about what steps you need to do to analyze very large multi-plex TMT datasets? This is a reanalysis of some Gygi Lab mouse liver data from 2015 and 2021 with 14.5 million MS2/MS3 scans in total. The big data needed a big discussion (kind of a long read).

github.com/pwilmart/mou...

4% male means that the young male samples are the noise in the data. That sounds like young males to me.

We’ve been considering creating an announcement mailing list for #PRIDE @pride-ebi.bsky.social; to share new features, releases, datasets, known issues, and more.

If you think this would be useful, please Like and RT!

Sure, let's give up on the quantitative proteomics technique that works because it is a bit harder than squirting some digest into an autosampler tube. DIA is half crappy data that is not wrong and half wrong data that is even crappier. Single shot studies are noise amplifiers that go to 11. Sigh...

Lucinda Brand just made 50 elite women's cyclocross podiums (placing 1, 2, or 3) in a row. That is like submitting your last 50 manuscripts to Nature, Science, or Cell and all getting accepted with no or minor revisions. It is an epic accomplishment by one of the true legends of the sport. Chapeau!

Maybe US HUPO can offer 10% discounts with AARP cards???

LinkedIck. There is no coming back from "the ick" according to Joanne and Morgan.

Ha-ha. What YOU want is no longer part of the algorithm.

But if you use multiomics, you can discover bogus biomarkers from any and all of the omics techniques. It is a natural exploration of how many wrongs does it take to make a right...

I grew up during the cold war where we had fascist "tools" using science and scientists to make weapons. Now we have scientists using fascist tools and weapons (ML and AI) in some failing effort to do good. If AI worked, it could do its own white washing. This is some real next generation absurdity.

Proteomics has the answers (unlike OLink and SomaLogic): wear your "top down" jacket and try to keep your "bottom up" off of the slippery sidewalks...

In the early days, artificial limbs were made out of wood. Since it is still the early days of artificial intelligence, I am going to substitute "wooden head" for "AI" every time I see it in scientific paper titles, in conference talks, and social media posts. It puts the work in a proper context...

There are more cells in the Mass Spec than in the experiments...

Maybe the instructors are confusing science with engineering. What would be beneficial is the high-level scientific gist of mass spectrometry. If you're spending more time on how ions move in electric and magnetic fields than the time it takes to read this sentence, then something is not right.

Joe is a great scientist and a wonderful collaborator. If you want to know more about platelets, this would be a good starting point.

Nice presentation, Brett. What to do with the data is such a big hurdle for the entire field. Data analysis and presentation of results is almost always really awful and has not gotten better over time. It is wonderful to see Perseus not being used. Ha-ha.

To be honest, when I see conferences announced that have a majority of male invited speakers, I think the organisers are not trying hard enough. We have so many excellent #FemalesinMS and resources available there is really no excuse for it anymore #massspec #teammassspec #lipidomics #metabolomics

Some new content at GitHub:

github.com/pwilmart/pow...

We have been measuring proteomes for a long time but almost never think about our data and results at the whole proteome level. We lose a lot of information when we think one protein at a time. We need to multiplex our thinking.