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Michael Marty

@michaelmarty.bsky.social

Scientist, Mass Spec, Membrane Biochemistry, Lipids, Department of Chemistry, University of Texas at Austin, #Nanodiscs, #UniDec

53 Posts841 Follower334 Folgt
Michael Marty@michaelmarty.bsky.social · yesterday

New preprint from the group describing IsoGen for isotope prediction from either FFTs or Neural Nets. Neural nets can be retrained to predict isotopes from a variety of inputs and with non-natural signatures. Check it out! Code: github.com/michaelmarty... Preprint: chemrxiv.org/doi/abs/10.2...

Neural Network Prediction of Isotopic Distributions | ChemRxiv

Isotope distribution prediction is an important part of mass spectrometry data analysis. A variety of strategies have been developed, including brute-force polynomial methods and Fourier-transform (FT...

chemrxiv.org

Michael Marty@michaelmarty.bsky.social · 2w ago

New preprint from the group: chemrxiv.org/doi/abs/10.2... This review seeks to catalog how lipidomics is used to characterize lipids bound to membrane proteins. We hope it's a useful resource for those interested in the field. It was a lot of work, but I'm excited with the result. #Lipidsky

Measuring the Membrane Protein-Bound Lipidome | ChemRxiv

Lipids play diverse physiological roles in energy storage, signaling, and cell structure. Another less appreciated role is as allosteric modulators of membrane proteins. However, it is challenging to ...

chemrxiv.org

Michael Marty@michaelmarty.bsky.social · 7mo ago

Does anyone else have issues with SciENcv and MyNCBI? It feels like every other click fails. Any tips? I can sometimes get it to work by just clicking the same thing until it does it, but it's rough

Michael Marty@michaelmarty.bsky.social · 8mo ago

New UniDec release: github.com/michaelmarty... Lots of bug fixes, improvements, and some under the hood changes to get ready for future features. A few cool new features. More notes in thread

Release UniDec Version 8.1.0 · michaelmarty/UniDec

Version 8.1.0 UniDec. Please cite Marty et al. Anal. Chem. 2015. DOI: 10.1021/acs.analchem.5b00140 if you use UniDec in publications. Check out a video tutorial: https://www.youtube.com/watch?v=e33...

github.com

Michael Marty@michaelmarty.bsky.social · 10mo ago

To everyone doing cool data analysis stuff, I'd love to see some analytical chem applicants in this search! Please pass along.

The University of Texas at Austin Department of Chemistry@utaustinchemistry.bsky.social · 10mo ago

We invite applications for tenure-track faculty whose research programs broadly align with the themes of Artificial Intelligence and Data Analytics (AI+DA) in the areas of life sciences, bioorganic, synthesis, analytical, materials, and generative AI. apply.interfolio.com/174602

Michael Marty@michaelmarty.bsky.social · last yr.

We've got a new MassSpecCodingClub module posted. The videos are linked here: github.com/michaelmarty... This module teaches how to parse FASTA files and read/write Pandas DataFrames. We explore an application of converting DDA data into an MRM transition list. Enjoy!

GitHub - michaelmarty/MassSpecCodingClub: A community dedicated to education of computer coding applied to mass spectrometry applications.

A community dedicated to education of computer coding applied to mass spectrometry applications. - GitHub - michaelmarty/MassSpecCodingClub: A community dedicated to education of computer coding a...

github.com

Michael Marty@michaelmarty.bsky.social · last yr.

Excited to have this published in @jacs.acspublications.org! IsoDec is a new neural network for charge state assignment with high-resolution MS data. We test it for top-down proteomics. It's free and fast, what else could you want? pubs.acs.org/doi/full/10....

A Fast Neural Network for Isotopic Charge State Assignment

Electrospray ionization (ESI) mass spectrometry is an essential technique for chemical analysis in a range of fields. In ESI, analytes can produce multiple charge states, which must be correctly assig...

pubs.acs.org

Mingxun Wang@mingxunwang.bsky.social · last yr.

I am thrilled to share after years of work/procrastination that the MassQL manuscript is finally published in @natmethods.nature.com - "A universal language for finding mass spectrometry data patterns". This was an team effort from all co-authors that helped shape MassQL and how it could be used.

Michael Marty@michaelmarty.bsky.social · last yr.

Well, the USA may be getting worse, but UniDec is getting better. Check out the new version here: github.com/michaelmarty... Mostly bug fixes. I'd love some people to try it out and let me know how it works on their computers. Hopefully it fixes issues with it getting blocked by antiviruses

Release UniDec Version 8.0.1 · michaelmarty/UniDec

Version 8.0.1 UniDec. Please cite Marty et al. Anal. Chem. 2015. DOI: 10.1021/acs.analchem.5b00140 if you use UniDec in publications. Check out a video tutorial: https://www.youtube.com/watch?v=e33...

github.com

Michael Marty@michaelmarty.bsky.social · last yr.

New paper from the group! Our first with MD simulations included. Congrats to Hiruni and Farhana, who worked really hard on this! pubs.acs.org/doi/full/10....

Alanine Scanning to Define Membrane Protein–Lipid Interaction Sites Using Native Mass Spectrometry

Lipids surrounding membrane proteins interact with different sites on the protein with varying specificities, ranging from highly specific to weak interactions. These interactions can modulate the str...

pubs.acs.org

Michael Marty@michaelmarty.bsky.social · last yr.

Very excited to share this commentary written by Chae, Daniel, and myself about navigating the postdoc experience. This started out of a discussion in a @femalesinms.bsky.social pod last year. Enjoy! pubs.acs.org/doi/10.1021/...

Navigating the Postdoc Experience

There are many reasons to consider postdoctoral research after completing a Ph.D. For those interested in academic careers at all levels, a postdoctoral research associate (PDRA) position is often req...

pubs.acs.org

Michael Marty@michaelmarty.bsky.social · 2y ago

Really excited to release a beta version of UniDec 8.0! The coolest feature is a new AI-based charge assignment for isotopic resolution data. It's performing a little better than Thrash/Xtract but way faster. Try out IsoDec if you are doing top-down! github.com/michaelmarty...

Release UniDec Version 8.0.0 · michaelmarty/UniDec

Version 8.0.0 UniDec. Please cite Marty et al. Anal. Chem. 2015. DOI: 10.1021/acs.analchem.5b00140 if you use UniDec in publications. Check out a video tutorial: https://www.youtube.com/watch?v=e33...

github.com