Mauricio Oliveira
@oliveiramauri.bsky.social
Neurobiologist @NYU’s Klann lab studying the molecular dynamics of diverse neuron types during cognitive tasks, and how it converges to behavior modification. Protein synthesis, mRNAs, RBPs and memory.
Pinned
Hey all! Just another scientist trying to steer clear from the hell the other website became! Hopefully a bit more science here and less fanaticism. If you like neurobiology, protein synthesis and memory follow this account. Also may have occasional dog pictures from Santi, my guitarist Daschund
Reposted by Mauricio Oliveira
popEVE is out in Nature Genetics! 🎉
We built a proteome-wide model that combines cross-species and human population variation to rank missense variants by disease severity and help diagnose rare genetic disorders.
rdcu.be/eRu7K
We built a proteome-wide model that combines cross-species and human population variation to rank missense variants by disease severity and help diagnose rare genetic disorders.
rdcu.be/eRu7K
Proteome-wide model for human disease genetics
Nature Genetics - popEVE is a proteome-wide deep generative model to identify and predict pathogenicity of missense mutations causing genetic disorders.
rdcu.be
November 24, 2025 at 1:35 PM
popEVE is out in Nature Genetics! 🎉
We built a proteome-wide model that combines cross-species and human population variation to rank missense variants by disease severity and help diagnose rare genetic disorders.
rdcu.be/eRu7K
We built a proteome-wide model that combines cross-species and human population variation to rank missense variants by disease severity and help diagnose rare genetic disorders.
rdcu.be/eRu7K
Reposted by Mauricio Oliveira
Cell Trajectory Inference based on Optimal Transport and a mechanistic stochastic gene expression model https://www.biorxiv.org/content/10.1101/2025.11.21.689689v1
November 22, 2025 at 1:04 PM
Cell Trajectory Inference based on Optimal Transport and a mechanistic stochastic gene expression model https://www.biorxiv.org/content/10.1101/2025.11.21.689689v1
Reposted by Mauricio Oliveira
Chemical proteomics decrypts the kinases that shape the dynamic human phosphoproteome https://www.biorxiv.org/content/10.1101/2025.11.18.689017v1
November 18, 2025 at 11:03 PM
Chemical proteomics decrypts the kinases that shape the dynamic human phosphoproteome https://www.biorxiv.org/content/10.1101/2025.11.18.689017v1
Reposted by Mauricio Oliveira
Recurrent neural network dynamics may not purely reflect cognitive strategies: A commentary on Ji-An et al. (Nature, 2025) https://www.biorxiv.org/content/10.1101/2025.10.30.685524v1
November 17, 2025 at 10:45 PM
Recurrent neural network dynamics may not purely reflect cognitive strategies: A commentary on Ji-An et al. (Nature, 2025) https://www.biorxiv.org/content/10.1101/2025.10.30.685524v1
Reposted by Mauricio Oliveira
ProtAttn-QuadNet: An attention-based deep learning framework for protein-protein interaction prediction using ProtBERT embeddings https://www.biorxiv.org/content/10.1101/2025.11.17.688786v1
November 17, 2025 at 11:46 PM
ProtAttn-QuadNet: An attention-based deep learning framework for protein-protein interaction prediction using ProtBERT embeddings https://www.biorxiv.org/content/10.1101/2025.11.17.688786v1
Reposted by Mauricio Oliveira
Journals should request a notepad file containing sessionInfo for every paper that uses clustering algorithms… reproducing a single cell clustering is almost impossible 😂😂
November 13, 2025 at 1:52 PM
Journals should request a notepad file containing sessionInfo for every paper that uses clustering algorithms… reproducing a single cell clustering is almost impossible 😂😂
Reposted by Mauricio Oliveira
A preprint‼️that's bound to ruffle some 🪶 "Widespread DNA off-targeting confounds studies of RNA chromatin occupancy" led by our Micah Goldrich and Louis Delhaye from
Pieter Mestdagh in Ghent. TL;DR we show that many of lncRNA chromatin occupancy obtained are flawed www.biorxiv.org/content/10.1...
Pieter Mestdagh in Ghent. TL;DR we show that many of lncRNA chromatin occupancy obtained are flawed www.biorxiv.org/content/10.1...
November 13, 2025 at 9:26 AM
A preprint‼️that's bound to ruffle some 🪶 "Widespread DNA off-targeting confounds studies of RNA chromatin occupancy" led by our Micah Goldrich and Louis Delhaye from
Pieter Mestdagh in Ghent. TL;DR we show that many of lncRNA chromatin occupancy obtained are flawed www.biorxiv.org/content/10.1...
Pieter Mestdagh in Ghent. TL;DR we show that many of lncRNA chromatin occupancy obtained are flawed www.biorxiv.org/content/10.1...
Reposted by Mauricio Oliveira
Reposted by Mauricio Oliveira
Leveraging #Proteomics to Explore the Molecular Mechanisms of Primary Tauopathies - Nementzik - 2025 - Journal of Neurochemistry - Wiley Online Library onlinelibrary.wiley.com/doi/10.1111/...
Leveraging Proteomics to Explore the Molecular Mechanisms of Primary Tauopathies
Primary tauopathies are a group of neurodegenerative diseases characterised by the aggregation of tau in the brain. In these diseases, little is known about the molecular mechanisms driving neurodege....
onlinelibrary.wiley.com
November 3, 2025 at 1:26 PM
Leveraging #Proteomics to Explore the Molecular Mechanisms of Primary Tauopathies - Nementzik - 2025 - Journal of Neurochemistry - Wiley Online Library onlinelibrary.wiley.com/doi/10.1111/...
Reposted by Mauricio Oliveira
This is such an interesting paper. Why? Because the binding of transcription factor (TF) proteins to DNA governs how our genes are turned on/off/up/down, & so is the primary issue for how our genes work in development and how our cells respond to just about anything.🧵
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Multiple overlapping binding sites determine transcription factor occupancy - Nature
A new method enables comprehensive screening and identification of low-affinity DNA binding sites for transcription factors, and reveals that nucleotides flanking high-affinity binding sites create ov...
www.nature.com
October 30, 2025 at 11:04 PM
This is such an interesting paper. Why? Because the binding of transcription factor (TF) proteins to DNA governs how our genes are turned on/off/up/down, & so is the primary issue for how our genes work in development and how our cells respond to just about anything.🧵
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Mauricio Oliveira
Excited to share the latest from the lab on the molecular mechanisms of silencing and un-silencing a hippocampal engram ensemble. Was fun using a variant of the EPSILON technique developed by Adam Cohen's lab.
(1/2)
www.sciencedirect.com/science/arti...
(1/2)
www.sciencedirect.com/science/arti...
Molecular mechanisms mediating engram ensemble retrievability state in mice
Engrams, ensembles of neurons that store memories, exist along a continuum of retrievability. Normally, sensory cues can reactivate a latent engram to…
www.sciencedirect.com
October 30, 2025 at 3:32 PM
Excited to share the latest from the lab on the molecular mechanisms of silencing and un-silencing a hippocampal engram ensemble. Was fun using a variant of the EPSILON technique developed by Adam Cohen's lab.
(1/2)
www.sciencedirect.com/science/arti...
(1/2)
www.sciencedirect.com/science/arti...
Reposted by Mauricio Oliveira
October 30, 2025 at 11:47 PM
Reposted by Mauricio Oliveira
Remodeling of RNA-Binding Proteome and RNA-mediated regulation as a new layer of control of sporulation https://www.biorxiv.org/content/10.1101/2025.03.21.644579v1
March 21, 2025 at 7:16 PM
Remodeling of RNA-Binding Proteome and RNA-mediated regulation as a new layer of control of sporulation https://www.biorxiv.org/content/10.1101/2025.03.21.644579v1
Reposted by Mauricio Oliveira
Nature research paper: Optimizing generative AI by backpropagating language model feedback
https://go.nature.com/4hsdeQW
https://go.nature.com/4hsdeQW
Optimizing generative AI by backpropagating language model feedback - Nature
Generative artificial intelligence (AI) systems can be optimized using TextGrad, a framework that performs optimization by backpropagating large-language-model-generated feedback; TextGrad enables optimization across diverse tasks, including radiotherapy treatment plans and molecule generation.
go.nature.com
March 21, 2025 at 12:08 PM
Nature research paper: Optimizing generative AI by backpropagating language model feedback
https://go.nature.com/4hsdeQW
https://go.nature.com/4hsdeQW
Reposted by Mauricio Oliveira
New cryo-EM/ET story - a brilliant collaboration with Sergey Melnikov's lab in Newcastle @sergeymelnikov.bsky.social and Stefan Pfeffer's lab in Heidelberg @pfeffercryolab.bsky.social. Great work in particular by Karla Helena-Bueno and @sophiekopetschke.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Structurally heterogeneous ribosomes cooperate in protein synthesis in bacterial cells - Nature Communications
Cells can simultaneously produce structurally dissimilar ribosomes, suggesting functional specialization of distinct ribosome populations. Here, the authors show that distinct ribosomes cooperate rath...
www.nature.com
March 21, 2025 at 9:30 AM
New cryo-EM/ET story - a brilliant collaboration with Sergey Melnikov's lab in Newcastle @sergeymelnikov.bsky.social and Stefan Pfeffer's lab in Heidelberg @pfeffercryolab.bsky.social. Great work in particular by Karla Helena-Bueno and @sophiekopetschke.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Mauricio Oliveira
Reposted by Mauricio Oliveira
Reposted by Mauricio Oliveira
Research briefing: A textbook assumption about the brain’s most abundant receptors needs to be rewritten
https://go.nature.com/3FDq3KZ
https://go.nature.com/3FDq3KZ
A textbook assumption about the brain’s most abundant receptors needs to be rewritten
Neuronal AMPA receptors previously assumed to be calcium impermeable are unexpectedly shown to transport calcium ions.
go.nature.com
March 20, 2025 at 5:00 PM
Research briefing: A textbook assumption about the brain’s most abundant receptors needs to be rewritten
https://go.nature.com/3FDq3KZ
https://go.nature.com/3FDq3KZ
Reposted by Mauricio Oliveira
Reposted by Mauricio Oliveira
🚨 Don't Delay, Submit Your Application Today!🚨
The 11th Annual ECR Manuscript Competition at HUPO 2025 in Toronto (sponsored by Taylor & Francis) is your opportunity to gain recognition, showcase your research, and make an impact.
🔗 Submit now: hupo.org/ECR-Manuscript…
The 11th Annual ECR Manuscript Competition at HUPO 2025 in Toronto (sponsored by Taylor & Francis) is your opportunity to gain recognition, showcase your research, and make an impact.
🔗 Submit now: hupo.org/ECR-Manuscript…
https://hupo.org/ECR-Manuscript…
March 20, 2025 at 11:58 AM
🚨 Don't Delay, Submit Your Application Today!🚨
The 11th Annual ECR Manuscript Competition at HUPO 2025 in Toronto (sponsored by Taylor & Francis) is your opportunity to gain recognition, showcase your research, and make an impact.
🔗 Submit now: hupo.org/ECR-Manuscript…
The 11th Annual ECR Manuscript Competition at HUPO 2025 in Toronto (sponsored by Taylor & Francis) is your opportunity to gain recognition, showcase your research, and make an impact.
🔗 Submit now: hupo.org/ECR-Manuscript…
Reposted by Mauricio Oliveira
Reposted by Mauricio Oliveira
Domain-specific embeddings uncover latent genetics knowledge www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/sciencesteve...
March 19, 2025 at 6:30 PM
Domain-specific embeddings uncover latent genetics knowledge www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/sciencesteve...
Reposted by Mauricio Oliveira
I missed this. You can use Seqera AI in GitHub copilot to get AI assistance with Nextflow DSL2 directly in VS Code 🚀🧬🖥️🧪
Bringing the Seqera AI experience to the Nextflow VS Code Extension
Watch the tutorial from Sasha Dagayev on the new Github Copilot integration with the Nextflow VS Code extension.
www.youtube.com
March 19, 2025 at 12:20 PM
I missed this. You can use Seqera AI in GitHub copilot to get AI assistance with Nextflow DSL2 directly in VS Code 🚀🧬🖥️🧪
Reposted by Mauricio Oliveira
@neuropsi.bsky.social has a call for new group leaders. You can apply there : dao-neuropsi.cnrs.fr Deadline : May, 30
March 17, 2025 at 9:04 PM
@neuropsi.bsky.social has a call for new group leaders. You can apply there : dao-neuropsi.cnrs.fr Deadline : May, 30