Martiela Freitas
@martiela.bsky.social
🇧🇷 Mathematics, Genetics & Mol. Biology
🇺🇸 Postdoc at Antunes's Lab
👩🏽💻 Structural biology applied to cancer research.
🎨 Wet colours artist.
🇺🇸 Postdoc at Antunes's Lab
👩🏽💻 Structural biology applied to cancer research.
🎨 Wet colours artist.
Reposted by Martiela Freitas
MDPath: Unraveling Allosteric Communication Paths of Drug Targets through Molecular Dynamics Simulations https://www.biorxiv.org/content/10.1101/2025.03.27.645168v1
March 29, 2025 at 7:47 AM
MDPath: Unraveling Allosteric Communication Paths of Drug Targets through Molecular Dynamics Simulations https://www.biorxiv.org/content/10.1101/2025.03.27.645168v1
Reposted by Martiela Freitas
AMULETY: A Python package to embed adaptive immune receptor sequences https://www.biorxiv.org/content/10.1101/2025.03.21.644583v1
March 25, 2025 at 7:47 PM
AMULETY: A Python package to embed adaptive immune receptor sequences https://www.biorxiv.org/content/10.1101/2025.03.21.644583v1
"Nothing says love like coffee." Now I get it.
March 25, 2025 at 12:09 PM
"Nothing says love like coffee." Now I get it.
Reposted by Martiela Freitas
RFdiffusion seems to be incapable of sampling protein topologies that cannot be accurately modeled by its base model RosettaFold. This potential blind spot can (allegedly) be overcome by instead using protein backbone diffusion models trained from scratch www.nature.com/articles/s41...
October 16, 2024 at 12:14 PM
RFdiffusion seems to be incapable of sampling protein topologies that cannot be accurately modeled by its base model RosettaFold. This potential blind spot can (allegedly) be overcome by instead using protein backbone diffusion models trained from scratch www.nature.com/articles/s41...
Reposted by Martiela Freitas
A failure Ive noticed w RFdiffusion w big proteins is distorted backbone torsions outside normal Ramachandran space, which ProteinMPNN designs as polyglycines that arent accurately refolded. Curious if others have also seen this & if reducing Gly insertion improves designability
October 25, 2024 at 11:34 AM
A failure Ive noticed w RFdiffusion w big proteins is distorted backbone torsions outside normal Ramachandran space, which ProteinMPNN designs as polyglycines that arent accurately refolded. Curious if others have also seen this & if reducing Gly insertion improves designability
Kubernetes, also known as K8s, is an open-source system for automating deployment, scaling, and management of containerized applications.
-- The Kubernetes team
-- The Kubernetes team
March 22, 2025 at 6:09 AM
Kubernetes, also known as K8s, is an open-source system for automating deployment, scaling, and management of containerized applications.
-- The Kubernetes team
-- The Kubernetes team
Reposted by Martiela Freitas
Installing mdanalysis on HPC?
# Use conda, if Miniforge isn't explicitly available.
module load miniforge
# It’s good practice to use a separate environment for MDAnalysis
conda create -n mdanalysis_env python=3.9 -y
conda activate mdanalysis_env
# Use conda, if Miniforge isn't explicitly available.
module load miniforge
# It’s good practice to use a separate environment for MDAnalysis
conda create -n mdanalysis_env python=3.9 -y
conda activate mdanalysis_env
January 21, 2025 at 9:31 PM
Installing mdanalysis on HPC?
# Use conda, if Miniforge isn't explicitly available.
module load miniforge
# It’s good practice to use a separate environment for MDAnalysis
conda create -n mdanalysis_env python=3.9 -y
conda activate mdanalysis_env
# Use conda, if Miniforge isn't explicitly available.
module load miniforge
# It’s good practice to use a separate environment for MDAnalysis
conda create -n mdanalysis_env python=3.9 -y
conda activate mdanalysis_env
Snowing.
Houston, TX, US.
Houston, TX, US.
January 21, 2025 at 9:16 PM
Snowing.
Houston, TX, US.
Houston, TX, US.
Parar de dizer que não tenho tempo pra ler. Cada vez que falo, eu fico doente!
April 3, 2024 at 4:45 PM
Parar de dizer que não tenho tempo pra ler. Cada vez que falo, eu fico doente!
Reposted by Martiela Freitas
Reference Sequence Browser: An R application with a User-Friendly GUI to rapidly query sequence databases https://www.biorxiv.org/content/10.1101/2023.09.20.558722v1
Reference Sequence Browser: An R application with a User-Friendly GUI to rapidly query sequence databases https://www.biorxiv.org/content/10.1101/2023.09.20.558722v1
Land managers, researchers, and regulators increasingly utilize environmental DNA (eDNA) techniques
www.biorxiv.org
September 23, 2023 at 3:47 PM
Reference Sequence Browser: An R application with a User-Friendly GUI to rapidly query sequence databases https://www.biorxiv.org/content/10.1101/2023.09.20.558722v1
Reposted by Martiela Freitas
starTracer: An Accelerated Approach for Precise Marker Gene Identification in Single-Cell RNA-Seq Analysis https://www.biorxiv.org/content/10.1101/2023.09.21.558919v1
starTracer: An Accelerated Approach for Precise Marker Gene Identification in Single-Cell RNA-Seq Analysis https://www.biorxiv.org/content/10.1101/2023.09.21.558919v1
We introduce starTracer, a novel R package designed to enhance the specificity and efficiency of mar
www.biorxiv.org
September 24, 2023 at 12:48 AM
starTracer: An Accelerated Approach for Precise Marker Gene Identification in Single-Cell RNA-Seq Analysis https://www.biorxiv.org/content/10.1101/2023.09.21.558919v1