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Alessandro Rondina

dblp:421/0403 · DBLP profile ↗
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1ranked-venue papers
0as first author
1since 2021 · last 2025
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Artificial intelligence and machine learning · 1 · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%
Artificial intelligence
1 paper
Generative modeling · 100%

Topics — the 3 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Machine learning › Generative modeling
diffusion model
0.912025
NMA-tune: Generating Highly Designable and Dynamics Aware Protein Backbones · ICML 2025
Bioinformatics and computational biology › protein design
protein backbone generation
0.912025
NMA-tune: Generating Highly Designable and Dynamics Aware Protein Backbones · ICML 2025
Bioinformatics and computational biology
protein design
0.912025
NMA-tune: Generating Highly Designable and Dynamics Aware Protein Backbones · ICML 2025

Methods — techniques the papers use, named apart from their topics

normal mode analysis · 1.7molecular dynamics simulation · 1.7RFdiffusion · 0.9RFDiffusion · 0.9
YearPublicationVenuePosition
2025 NMA-tune: Generating Highly Designable and Dynamics Aware Protein Backbones
abstract
Protein’s backbone flexibility is a crucial property that heavily influences its functionality. Recent work in the field of protein diffusion probabilistic modelling has leveraged Normal Mode Analysis (NMA) and, for the first time, introduced information about large scale protein motion into the generative process. However, obtaining molecules with both the desired dynamics and designable quality has proven challenging. In this work, we present NMA-tune, a new method that introduces the dynamics information to the protein design stage. NMA-tune uses a trainable component to condition the backbone generation on the lowest normal mode of oscillation. We implement NMA-tune as a plug-and-play extension to RFdiffusion, show that the proportion of samples with high quality structure and the desired dynamics is improved as compared to other methods without the trainable component, and we show the presence of the targeted modes in the Molecular Dynamics simulations.
Urszula Julia Komorowska, Francisco Vargas 0001, Alessandro Rondina, Pietro Liò, Mateja Jamnik
ICML3