Michael Skinnider
@skinniderlab
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assistant professor @Princeton interested in biological and chemical data
Joined June 2023
Great Opportunity: Application for Assistant, Associate, or Full Professor, Ludwig Princeton Branch to contribute to a major initiative at the interface between cancer, immunity, and metabolism. @Princeton @LudwigCancer @RutgersCancer
https://t.co/uDtbi2PLyL
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Well, it took a little longer than expected, but we're happy to share our lab's first paper. Thanks to the reviewers and editors at JACS for sticking with us through a surprisingly weird story đ
. Science never changes.
pubs.acs.org
Antibiotics are essential for modern medicine, but their use drives the evolution of antimicrobial resistance (AMR) that limits the long-term efficacy of any one drug. To keep pace with AMR and...
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Thrilled to share our approach for language model-guided discovery of unknown mammalian metabolites: DeepMet. Weâve now used this approach to discover ~50 new human and mouse metabolites!
biorxiv.org
Despite decades of study, large parts of the mammalian metabolome remain unexplored. Mass spectrometry-based metabolomics routinely detects thousands of small molecule-associated peaks within human...
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Ludwig @Princeton seeks applications for an assistant, associate or full professor to contribute to a major new initiative at the interface of cancer, immunity and metabolism. https://t.co/l58mWxul88
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Very happy to see our work on mapping the 4D molecular pathobiology of spinal cord injury now in print:
Nature research paper: Single-cell and spatial atlases of spinal cord injury in the Tabulae Paralytica
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Excited to share our approach to the biological interpretation of comparative spatial transcriptomics experiments - Vespucci @j_squair @gcourtine
biorxiv.org
We introduce Vespucci, a machine-learning method to identify perturbation-responsive regions, genes and gene programs within comparative spatial transcriptomics atlases. We validate Vespucci on...
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new lab preprint - using proteomics and protein co-variation to infer protein association networks across 11 human tissues to study what determines tissue differences and to prioritize disease genes in GWAS linked genes through tissue specific networks
biorxiv.org
Proteins that interact together participate in the same cellular process and influence the same organismal traits. Despite the progress in mapping protein-protein interactions we lack knowledge of...
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Very happy to share this work testing a widespread assumption in chemical AI and showing that invalid SMILES are a feature, not a bug:
nature.com
Nature Machine Intelligence - Generative models for chemical structures are often trained to create output in the common SMILES notation. Michael Skinnider shows that training models with the goal...
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Work from the Long Lab @longlabstanford and our lab working with @DavidFinlayTCD on links between metformin, and eating (especially solid food) on Lac-Phe levels and appetite suppression @NatMetabolism
Back-to-back papers in @NatMetabolism today: a surprising connection between the appetite-suppressing metabolite Lac-Phe and metformin-associated weight loss. From @lynchielydia and @skxiao_nju @Stanford_ChEMH
https://t.co/F76pq0X3PC
https://t.co/2fiqGhMp9c
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We are advertising two postdoc positions at Princeton: one in computational mass spectrometry broadly defined, the second more specifically in AI/ML for illicit drug identification. Please feel free to reach out with any questions: https://t.co/hT61wuA96P
https://t.co/9Tb2GgjRGz
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Spectrum of the past https://t.co/M52KiCiGCc An old News & Views article by @skinniderlab from @Princeton on a neural network called MSnet created by Curry and Rumelhart and published in Tetrahedron Comput. Methodol. 34 year ago.
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I am so excited that the paper led by @bittremieux on the creation of an open resource with nearest neighbor molecular network ms/ms library is out. https://t.co/N3tVa10EZh when one does not get a match against existing libraries-this may help.
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Very happy to share our latest work on harmonizing raw mass spectrometry data from >21,000 proteomic experiments to enable meta-analyses of protein interactions and phosphorylation at the largest scale yet: https://t.co/iZHp9NdSgA
@lenjf
nature.com
Nature Communications - Co-fractionation mass spectrometry (CF-MS) is a powerful technique for mapping protein interactions under physiological conditions. Here, the authors uniformly re-process...
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Using transfer learning to develop a NPS-specific MS/MS prediction model. If you're interested, check out the OA publication and head to https://t.co/DObuPczBj7 to try it for yourself. https://t.co/M6u4mIpN8U
pubs.acs.org
The market for illicit drugs has been reshaped by the emergence of more than 1100 new psychoactive substances (NPS) over the past decade, posing a major challenge to the forensic and toxicological...
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Excited to share our new work on detecting âdesigner drugsâ with (computational) mass spectrometry. We developed a platform to help toxicological labs make data-driven decisions about what clinical tests to develop next:
pubs.acs.org
Over the last two decades, hundreds of new psychoactive substances (NPSs), also known as âdesigner drugsâ, have emerged on the illicit drug market. The toxic and potentially fatal effects of these...
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New process for screening old urine samples reveals previously undetected âdesigner drugs.' The approach can potentially save lives and guide timely clinical responses to drug-related emergencies. Read more: https://t.co/jYWDNA3rxP
@UBCmedicine
@BCCSU
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Here are the winners of this yearâs #Science Awards: Congrats to @HoebartnerLab for being awarded with the Hansen Family Award and @gaofir, Dr. Erin Stache, @skinniderlab and Dr. Vivi Maketa for winning the Early Excellence in Science Award. https://t.co/UTUTNvbDjY
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For developing an #AI-based approach to identify new designer drugs wreaking havoc in an ever-greater number of global communities, Michael A. Skinnider is the winner of the 2023 NOMIS & Science Young Explorer Award. đ Read more: https://t.co/7FhEBc5rLP
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Assessing the limits of zero-shot foundation models in single-cell biology https://t.co/voCRbz0Y5Y
#bioRxiv
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Discover our latest study, published in @ScienceMagazine , which reveals a groundbreaking approach to regenerating axons through complete spinal cord injury, reversing paralysis. Read the full article here: https://t.co/cPxitS2xl0
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