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- ArticleOctober 2023
Enhancing Fairness and Accuracy in Machine Learning Through Similarity Networks
AbstractMachine Learning is a powerful tool for uncovering relationships and patterns within datasets. However, applying it to a large datasets can lead to biased outcomes and quality issues, due to confounder variables indirectly related to the outcome ...
- ArticleJuly 2023
Degree-Normalization Improves Random-Walk-Based Embedding Accuracy in PPI Graphs
- Luca Cappelletti,
- Stefano Taverni,
- Tommaso Fontana,
- Marcin P. Joachimiak,
- Justin Reese,
- Peter Robinson,
- Elena Casiraghi,
- Giorgio Valentini
AbstractAmong the many proposed solutions in graph embedding, traditional random walk-based embedding methods have shown their promise in several fields. However, when the graph contains high-degree nodes, random walks often neglect low- or middle-degree ...
- ArticleJuly 2023
A Meta-Graph for the Construction of an RNA-Centered Knowledge Graph
- Emanuele Cavalleri,
- Sara Bonfitto,
- Alberto Cabri,
- Jessica Gliozzo,
- Paolo Perlasca,
- Mauricio Soto-Gomez,
- Gabriella Trucco,
- Elena Casiraghi,
- Giorgio Valentini,
- Marco Mesiti
AbstractThe COVID-19 pandemic highlighted the importance of RNA-based technologies for the development of new vaccines. Besides vaccines, a world of RNA-based drugs, including small non-coding RNA, could open new avenues for the development of novel ...
- research-articleMarch 2023
A method for comparing multiple imputation techniques: A case study on the U.S. national COVID cohort collaborative
- Elena Casiraghi,
- ,
- Rachel Wong,
- Margaret Hall,
- Ben Coleman,
- Marco Notaro,
- Michael D. Evans,
- Jena S. Tronieri,
- Hannah Blau,
- Bryan Laraway,
- Tiffany J. Callahan,
- Lauren E. Chan,
- Carolyn T. Bramante,
- John B. Buse,
- Richard A. Moffitt,
- Til Stürmer,
- Steven G. Johnson,
- Yu Raymond Shao,
- Justin Reese,
- Peter N. Robinson,
- Alberto Paccanaro,
- Giorgio Valentini,
- Jared D. Huling,
- Kenneth J. Wilkins
Journal of Biomedical Informatics (JOBI), Volume 139, Issue Chttps://doi.org/10.1016/j.jbi.2023.104295Graphical abstractDisplay Omitted
AbstractHealthcare datasets obtained from Electronic Health Records have proven to be extremely useful for assessing associations between patients’ predictors and outcomes of interest. However, these datasets often suffer from missing values in a high ...
- ArticleMarch 2022
Neighborhood Selection for Dimensionality Reduction
AbstractThough a great deal of research work has been devoted to the development of dimensionality reduction algorithms, the problem is still open. The most recent and effective techniques, assuming datasets drawn from an underlying low dimensional ...
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- brief-reportMarch 2021
15 Years of Stanca Act: Are Italian Public universities websites accessible?
Universal Access in the Information Society (UAIS), Volume 20, Issue 1Pages 185–200https://doi.org/10.1007/s10209-020-00711-0AbstractWith the increasing spread and usage of Internet technologies, the challenge of ensuring Web accessibility for all, including anyone with a form of disability, has become an hot issue, pursued both by the World Wide Web Consortium (W3C) and by ...
- ArticleMay 2020
Bayesian Optimization Improves Tissue-Specific Prediction of Active Regulatory Regions with Deep Neural Networks
- Luca Cappelletti,
- Alessandro Petrini,
- Jessica Gliozzo,
- Elena Casiraghi,
- Max Schubach,
- Martin Kircher,
- Giorgio Valentini
AbstractThe annotation and characterization of tissue-specific cis-regulatory elements (CREs) in non-coding DNA represents an open challenge in computational genomics. Several prior works show that machine learning methods, using epigenetic or spectral ...
- ArticleSeptember 2018
A Graphical Tool for the Exploration and Visual Analysis of Biomolecular Networks
- Cheick Tidiane Ba,
- Elena Casiraghi,
- Marco Frasca,
- Jessica Gliozzo,
- Giuliano Grossi,
- Marco Mesiti,
- Marco Notaro,
- Paolo Perlasca,
- Alessandro Petrini,
- Matteo Re,
- Giorgio Valentini
Computational Intelligence Methods for Bioinformatics and BiostatisticsPages 88–98https://doi.org/10.1007/978-3-030-34585-3_8AbstractMany interactions among bio-molecular entities, e.g. genes, proteins, metabolites, can be easily represented by means of property graphs, i.e. graphs that are annotated both on the vertices (e.g. entity identifier, Gene Ontology or Human Phenotype ...
- articleOctober 2012
Novel Fisher discriminant classifiers
Pattern Recognition (PATT), Volume 45, Issue 10Pages 3725–3737https://doi.org/10.1016/j.patcog.2012.03.021At the present, several applications need to classify high dimensional points belonging to highly unbalanced classes. Unfortunately, when the training set cardinality is small compared to the data dimensionality (''small sample size'' problem) the ...
- articleOctober 2012
Novel high intrinsic dimensionality estimators
Recently, a great deal of research work has been devoted to the development of algorithms to estimate the intrinsic dimensionality ( id ) of a given dataset, that is the minimum number of parameters needed to represent the data without information ...
- ArticleMay 2012
A Novel Intrinsic Dimensionality Estimator Based on Rank-Order Statistics
Revised Selected Papers of the First International Workshop on Clustering High--Dimensional Data - Volume 7627Pages 102–117https://doi.org/10.1007/978-3-662-48577-4_7In the past two decades the estimation of the intrinsic dimensionality of a dataset has gained considerable importance, since it is a relevant information for several real life applications. Unfortunately, although a great deal of research effort has ...
- ArticleSeptember 2011
IDEA: intrinsic dimension estimation algorithm
ICIAP'11: Proceedings of the 16th international conference on Image analysis and processing: Part IPages 433–442The high dimensionality of some real life signals makes the usage of the most common signal processing and pattern recognition methods unfeasible. For this reason, in literature a great deal of research work has been devoted to the development of ...
- ArticleSeptember 2011
Minimum neighbor distance estimators of intrinsic dimension
Most of the machine learning techniques suffer the "curse of dimensionality" effect when applied to high dimensional data. To face this limitation, a common preprocessing step consists in employing a dimensionality reduction technique. In literature, a ...
- ArticleSeptember 2011
Minimum neighbor distance estimators of intrinsic dimension
ECMLPKDD'11: Proceedings of the 2011th European Conference on Machine Learning and Knowledge Discovery in Databases - Volume Part IIPages 374–389https://doi.org/10.1007/978-3-642-23783-6_24Most of the machine learning techniques suffer the "curse of dimensionality" effect when applied to high dimensional data. To face this limitation, a common preprocessing step consists in employing a dimensionality reduction technique. In literature, a ...
- articleSeptember 2010
A segmentation framework for abdominal organs from CT scans
Artificial Intelligence in Medicine (AIIM), Volume 50, Issue 1Pages 3–11https://doi.org/10.1016/j.artmed.2010.04.010Objective: Computed tomography images are becoming an invaluable mean for abdominal organ investigation. In the field of medical image processing, some of the current interests are the automatic diagnosis of liver, spleen, and kidney pathologies, and ...
- ArticleNovember 2009
Novel IPCA-Based Classifiers and Their Application to Spam Filtering
ISDA '09: Proceedings of the 2009 Ninth International Conference on Intelligent Systems Design and ApplicationsPages 797–802https://doi.org/10.1109/ISDA.2009.21This paper proposes a novel two-class classifier, called IPCAC, based on the Isotropic Principal Component Analysis technique; it allows to deal with training data drawn from Mixture of Gaussian distributions, by projecting the data on the Fisher ...
- chapterJune 2009
3D Volume Reconstruction and Biometric Analysis of Fetal Brain from MR Images
Computational Intelligence Methods for Bioinformatics and BiostatisticsJune 2009, Pages 188–197https://doi.org/10.1007/978-3-642-02504-4_17Magnetic resonance imaging (MRI) is becoming increasingly popular as a second-level technique, performed after ultrasonography (US) scanning, for detecting morphologic brain abnormalities. For this reason, several medical researchers in the past few ...
- articleFebruary 2009
Liver segmentation from computed tomography scans: A survey and a new algorithm
Artificial Intelligence in Medicine (AIIM), Volume 45, Issue 2-3Pages 185–196https://doi.org/10.1016/j.artmed.2008.07.020Objective: In the recent years liver segmentation from computed tomography scans has gained a lot of importance in the field of medical image processing since it is the first and fundamental step of any automated technique for the automatic liver ...
- ArticleOctober 2008
Curvature Estimation and Curve Inference with Tensor Voting: A New Approach
ACIVS '08: Proceedings of the 10th International Conference on Advanced Concepts for Intelligent Vision SystemsPages 613–624https://doi.org/10.1007/978-3-540-88458-3_55Recently the tensor voting framework (<Literal>TVF</Literal> ), proposed by Medioni at al., has proved its effectiveness in perceptual grouping of arbitrary dimensional data. In the computer vision field, this algorithm has been applied to solve various ...
- ArticleJune 2008
Fully Automatic Segmentation of Abdominal Organs from CT Images Using Fast Marching Methods
CBMS '08: Proceedings of the 2008 21st IEEE International Symposium on Computer-Based Medical SystemsPages 554–559https://doi.org/10.1109/CBMS.2008.9Computed tomography (CT) images are becoming an invaluable mean for abdominal organ investigation. In the field of medical image processing, some of the current interests are the automatic diagnosis of liver, spleen, and kidney pathologies and the 3D ...