Filippo Utro

45 papers B 1C 1Misc 2Journal 34Unranked 5
YearRankTypeTitle / Venue / Authors
2025 J jnl
AutoXAI4Omics: an automated explainable AI tool for omics and tabular data.
Briefings Bioinform.
James Strudwick, Laura-Jayne Gardiner, Kate Denning-James, Niina Haiminen, Ashley Evans, Jennifer Kelly, Matthew Madgwick, Filippo Utro, Ed Seabolt, Christopher Gibson, Bharat Bedi, Daniel Clayton, Ciaron Howell, Laxmi Parida, Anna Paola Carrieri
2025 J jnl
BioSet2Vec: extraction of k-mer dictionaries from multiple sets of biological sequences via big data technologies.
BMC Bioinform.
Ylenia Galluzzo, Raffaele Giancarlo, Simona E. Rombo, Filippo Utro
2025 J jnl
Enhanced Prediction of CAR T-Cell Cytotoxicity with Quantum-Kernel Methods.
CoRR
Filippo Utro, Meltem Tolunay, Kahn Rhrissorrakrai, Tanvi P. Gujarati, Jie Shi, Sara Capponi, Mirko Amico, Nathan Earnest-Noble, Laxmi Parida
2025 J jnl
How quantum computing can enhance biomarker discovery.
Patterns
Frederik F. Flöther, Daniel Blankenberg, Maria Demidik, Karl Jansen, Raga Krishnakumar, Rajiv Krishnakumar, Nouamane Laanait, Laxmi Parida, Carl Y. Saab, Filippo Utro
2025 J jnl
Quantum Doubly Stochastic Transformers.
CoRR
Jannis Born, Filip Skogh, Kahn Rhrissorrakrai, Filippo Utro, Nico Wagner, Aleksandros Sobczyk
2025 J jnl
Quantum Ensembling Methods for Healthcare and Life Science.
CoRR
Kahn Rhrissorrakrai, Kathleen E. Hamilton, Prerana Bangalore Parthsarathy, Aldo Guzmán-Sáenz, Tyler Alban, Filippo Utro, Laxmi Parida
2024 Misc conf
Hybrid Quantum-Classical Graph Neural Networks for Tumor Classification in Digital Pathology.
QCE
Anupama Ray, Dhiraj Madan, Srushti Patil, Pushpak Pati, Maria Anna Rapsomaniki, Aviwe Kohlakala, Thembelihle Rose Dlamini, Stephanie Julia Muller, Kahn Rhrissorrakrai, Filippo Utro, Laxmi Parida
2023 J jnl
Lesion Shedding Model: unraveling site-specific contributions to ctDNA.
Briefings Bioinform.
Kahn Rhrissorrakrai, Filippo Utro, Chaya Levovitz, Laxmi Parida
2021 Misc conf
Impact of Clinical and Genomic Factors on COVID-19 Disease Severity.
AMIA
Sanjoy Dey, Aritra Bose, Subrata Saha, Prithwish Chakraborty, Mohamed F. Ghalwash, Filippo Utro, Aldo Guzmán-Sáenz, Kenney Ng, Jianying Hu, Laxmi Parida, Daby Sow
2021 J jnl
Multiple Loci Selection with Multi-Way Epistasis in Coalescence with Recombination.
Algorithms
Aritra Bose, Filippo Utro, Daniel E. Platt, Laxmi Parida
2019 — ch.
Computation Cluster Validation in the Big Data Era.
Encyclopedia of Bioinformatics and Computational Biology (1)
Raffaele Giancarlo, Filippo Utro
2019 J jnl
DNA combinatorial messages and Epigenomics: The case of chromatin organization and nucleosome occupancy in eukaryotic genomes.
Theor. Comput. Sci.
Raffaele Giancarlo, Simona E. Rombo, Filippo Utro
2019 J jnl
Dark-matter matters: Discriminating subtle blood cancers using the darkest DNA.
PLoS Comput. Biol.
Laxmi Parida, Claudia Haferlach, Kahn Rhrissorrakrai, Filippo Utro, Chaya Levovitz, Wolfgang Kern, Niroshan Nadarajah, Sven Twardziok, Stephan Hutter, Manja Meggendorfer, Wencke Walter, Constance Baer, Torsten Haferlach
2019 J jnl
Linear Time Algorithms to Construct Populations Fitting Multiple Constraint Distributions at Genomic Scales.
IEEE ACM Trans. Comput. Biol. Bioinform.
Enrico Siragusa, Niina Haiminen, Filippo Utro, Laxmi Parida
2018 C conf
Essential Simplices in Persistent Homology and Subtle Admixture Detection.
WABI
Saugata Basu, Filippo Utro, Laxmi Parida
2018 J jnl
In vitro versus in vivo compositional landscapes of histone sequence preferences in eucaryotic genomes.
Bioinform.
Raffaele Giancarlo, Simona E. Rombo, Filippo Utro
2018 — conf
Simultaneous Phasing of Multiple Polyploids.
CIBB
Laxmi Parida, Filippo Utro
2017 — conf
A Quantitative and Qualitative Characterization of k-mer Based Alignment-Free Phylogeny Construction.
CIBB
Filippo Utro, Daniel E. Platt, Laxmi Parida
2017 J jnl
Foreword: Algorithms, Strings and Theoretical Approaches in the Big Data Era - Special Issue in Honor of the 60th Birthday of Professor Raffaele Giancarlo.
Theor. Comput. Sci.
Simona E. Rombo, Filippo Utro
2016 J jnl
Sampling ARG of multiple populations under complex configurations of subdivision and admixture.
Bioinform.
Anna Paola Carrieri, Filippo Utro, Laxmi Parida
2016 J jnl
The intrinsic combinatorial organization and information theoretic content of a sequence are correlated to the DNA encoded nucleosome organization of eukaryotic genomes.
Bioinform.
Filippo Utro, Valeria Di Benedetto, Davide F. V. Corona, Raffaele Giancarlo
2015 J jnl
Bayesian versus data driven model selection for microarray data.
Nat. Comput.
Raffaele Giancarlo, Giosuè Lo Bosco, Filippo Utro
2015 J jnl
Epigenomic
Bioinform.
Raffaele Giancarlo, Simona E. Rombo, Filippo Utro
2015 B conf
Topological Signatures for Population Admixture.
RECOMB
Laxmi Parida, Filippo Utro, Deniz Yörükoglu, Anna Paola Carrieri, David Kuhn, Saugata Basu
2015 J jnl
ValWorkBench: An open source Java library for cluster validation, with applications to microarray data analysis.
Comput. Methods Programs Biomed.
Raffaele Giancarlo, Davide Scaturro, Filippo Utro
2014 J jnl
Compressive biological sequence analysis and archival in the era of high-throughput sequencing technologies.
Briefings Bioinform.
Raffaele Giancarlo, Simona E. Rombo, Filippo Utro
2014 J jnl
Effect of sampling on the extent and accuracy of the inferred genetic history of recombining genome.
Comput. Biol. Chem.
Daniel E. Platt, Filippo Utro, Laxmi Parida
2013 J jnl
A methodology to assess the intrinsic discriminative ability of a distance function and its interplay with clustering algorithms for microarray data analysis.
BMC Bioinform.
Raffaele Giancarlo, Giosuè Lo Bosco, Luca Pinello, Filippo Utro
2013 J jnl
Efficient
Algorithms
Niina Haiminen, Filippo Utro, Claude Lebreton, Pascal Flament, Zivan Karaman, Laxmi Parida
2013 — ch.
Genetic History of Populations: Limits to Inference.
Models and Algorithms for Genome Evolution
Daniel E. Platt, Filippo Utro, Marc Pybus, Laxmi Parida
2013 J jnl
Sum of parts is greater than the whole: inference of common genetic history of populations.
BMC Genom.
Filippo Utro, Marc Pybus, Laxmi Parida
2012 J jnl
ARG-based genome-wide analysis of cacao cultivars.
BMC Bioinform.
Filippo Utro, Omar Cornejo, Donald Livingstone, Juan Motamayor, Laxmi Parida
2012 J jnl
Algorithmic paradigms for stability-based cluster validity and model selection statistical methods, with applications to microarray data analysis.
Theor. Comput. Sci.
Raffaele Giancarlo, Filippo Utro
2012 — conf
Stability-Based Model Selection for High Throughput Genomic Data: An Algorithmic Paradigm.
ICARIS
Raffaele Giancarlo, Filippo Utro
2012 J jnl
Textual data compression in computational biology: Algorithmic techniques.
Comput. Sci. Rev.
Raffaele Giancarlo, Davide Scaturro, Filippo Utro
2012 J jnl
The Chromatin Organization of an Eukaryotic Genome : Sequence Specific+ Statistical=Combinatorial (Extended Abstract)
CoRR
Davide Corona, Valeria Di Benedetto, Raffaele Giancarlo, Filippo Utro
2011 J jnl
Algorithms for Internal Validation Clustering Measures in the Post Genomic Era
CoRR
Filippo Utro
2011 J jnl
IRiS: Construction of ARG networks at genomic scales.
Bioinform.
Asif Javed, Marc Pybus, Marta Melé, Filippo Utro, Jaume Bertranpetit, Francesc Calafell, Laxmi Parida
2011 J jnl
Speeding up the Consensus Clustering methodology for microarray data analysis.
Algorithms Mol. Biol.
Raffaele Giancarlo, Filippo Utro
2010 — conf
Functional Information, Biomolecular Messages and Complexity of BioSequences and Structures.
Structure Discovery in Biology: Motifs, Networks & Phylogenies
Raffaele Giancarlo, Davide Corona, Valeria Di Benedetto, Alessandra Gabriele, Filippo Utro
2010 — conf
The Three Steps of Clustering in the Post-Genomic Era: A Synopsis.
CIBB
Raffaele Giancarlo, Giosuè Lo Bosco, Luca Pinello, Filippo Utro
2009 J jnl
Textual data compression in computational biology: a synopsis.
Bioinform.
Raffaele Giancarlo, Davide Scaturro, Filippo Utro
2008 J jnl
A Tutorial on Computational Cluster Analysis with Applications to Pattern Discovery in Microarray Data.
Math. Comput. Sci.
Raffaele Giancarlo, Davide Scaturro, Filippo Utro
2008 J jnl
Computational cluster validation for microarray data analysis: experimental assessment of Clest, Consensus Clustering, Figure of Merit, Gap Statistics and Model Explorer.
BMC Bioinform.
Raffaele Giancarlo, Davide Scaturro, Filippo Utro
2007 J jnl
A basic analysis toolkit for biological sequences.
Algorithms Mol. Biol.
Raffaele Giancarlo, Alessandro Siragusa, Enrico Siragusa, Filippo Utro