Daniele Raimondi

22 papers B 1Journal 21
YearRankTypeTitle / Venue / Authors
2025 J jnl
JINet: easy and secure private data analysis for everyone.
BMC Bioinform.
Giada Lalli, James Collier, Yves Moreau, Daniele Raimondi
2025 J jnl
The specification game: rethinking the evaluation of drug response prediction for precision oncology.
J. Cheminformatics
Francesco Codicè, Corrado Pancotti, Cesare Rollo, Yves Moreau, Piero Fariselli, Daniele Raimondi
2024 J jnl
JINet: easy and secure private data analysis for everyone.
CoRR
Giada Lalli, James Collier, Yves Moreau, Daniele Raimondi
2024 J jnl
MetDecode: methylation-based deconvolution of cell-free DNA for noninvasive multi-cancer typing.
Bioinform.
Antoine Passemiers, Stefania Tuveri, Dhanya Sudhakaran, Tatjana Jatsenko, Tina Laga, Kevin Punie, Sigrid Hatse, Sabine Tejpar, An Coosemans, Els Van Nieuwenhuysen, Dirk Timmerman, Giuseppe Floris, Anne-Sophie Van Rompuy, Xavier Sagaert, Antonia C. Testa, Daniela Ficherova, Daniele Raimondi, Frederic Amant, Liesbeth Lenaerts, Yves Moreau, Joris Robert Vermeesch
2023 J jnl
How good Neural Networks interpretation methods really are? A quantitative benchmark.
CoRR
Antoine Passemiers, Pietro Folco, Daniele Raimondi, Giovanni Birolo, Yves Moreau, Piero Fariselli
2023 J jnl
Nonlinear data fusion over Entity-Relation graphs for Drug-Target Interaction prediction.
Bioinform.
Eugenio Mazzone, Yves Moreau, Piero Fariselli, Daniele Raimondi
2022 J jnl
Editorial: Towards genome interpretation: Computational methods to model the genotype-phenotype relationship.
Frontiers Bioinform.
Daniele Raimondi, Gabriele Orlando, Nora Verplaetse, Piero Fariselli, Yves Moreau
2022 J jnl
Fast and accurate inference of gene regulatory networks through robust precision matrix estimation.
Bioinform.
Antoine Passemiers, Yves Moreau, Daniele Raimondi
2021 J jnl
A novel method for data fusion over entity-relation graphs and its application to protein-protein interaction prediction.
Bioinform.
Daniele Raimondi, Jaak Simm, Adam Arany, Yves Moreau
2021 J jnl
In silico prediction of in vitro protein liquid-liquid phase separation experiments outcomes with multi-head neural attention.
Bioinform.
Daniele Raimondi, Gabriele Orlando, Emiel Michiels, Donya Pakravan, Anna Bratek-Skicki, Ludo Van Den Bosch, Yves Moreau, Frederic Rousseau, Joost Schymkowitz
2021 J jnl
b2bTools: online predictions for protein biophysical features and their conservation.
Nucleic Acids Res.
Luciano Porto Kagami, Gabriele Orlando, Daniele Raimondi, François Ancien, Bhawna Dixit, Jose Gavaldá-García, Pathmanaban Ramasamy, Joel Roca-Martínez, Konstantina Tzavella, Wim F. Vranken
2020 J jnl
Accurate prediction of protein beta-aggregation with generalized statistical potentials.
Bioinform.
Gabriele Orlando, Alexandra Silva, Sandra Macedo-Ribeiro, Daniele Raimondi, Wim F. Vranken
2020 J jnl
Insight into the protein solubility driving forces with neural attention.
PLoS Comput. Biol.
Daniele Raimondi, Gabriele Orlando, Piero Fariselli, Yves Moreau
2020 B conf
On-Board Unit Big Data: Short-term Traffic Forecasting in Urban Transportation Networks.
DSAA
Giovanni Buroni, Yann-Aël Le Borgne, Gianluca Bontempi, Daniele Raimondi, Karl Determe
2020 J jnl
ShiftCrypt: a web server to understand and biophysically align proteins through their NMR chemical shift values.
Nucleic Acids Res.
Gabriele Orlando, Daniele Raimondi, Luciano Porto Kagami, Wim F. Vranken
2019 J jnl
Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates.
Bioinform.
Gabriele Orlando, Daniele Raimondi, Francesco Tabaro, Francesco Codicè, Yves Moreau, Wim F. Vranken
2018 J jnl
Ultra-fast global homology detection with Discrete Cosine Transform and Dynamic Time Warping.
Bioinform.
Daniele Raimondi, Gabriele Orlando, Yves Moreau, Wim F. Vranken
2017 J jnl
DEOGEN2: prediction and interactive visualization of single amino acid variant deleteriousness in human proteins.
Nucleic Acids Res.
Daniele Raimondi, Ibrahim Tanyalcin, Julien Ferté, Andrea M. Gazzo, Gabriele Orlando, Tom Lenaerts, Marianne Rooman, Wim F. Vranken
2017 J jnl
SVM-dependent pairwise HMM: an application to protein pairwise alignments.
Bioinform.
Gabriele Orlando, Daniele Raimondi, Taushif Khan, Tom Lenaerts, Wim F. Vranken
2016 J jnl
Multilevel biological characterization of exomic variants at the protein level significantly improves the identification of their deleterious effects.
Bioinform.
Daniele Raimondi, Andrea M. Gazzo, Marianne Rooman, Tom Lenaerts, Wim F. Vranken
2015 J jnl
Clustering-based model of cysteine co-evolution improves disulfide bond connectivity prediction and reduces homologous sequence requirements.
Bioinform.
Daniele Raimondi, Gabriele Orlando, Wim F. Vranken
2014 J jnl
Improved Contact Predictions Using the Recognition of Protein Like Contact Patterns.
PLoS Comput. Biol.
Marcin J. Skwark, Daniele Raimondi, Mirco Michel, Arne Elofsson