L. Clissa

Luca Clissa, Antonio Macaluso, Roberto Morelli et al.

Fluorescent Neuronal Cells v2 is a collection of fluorescence microscopy images and the corresponding ground-truth annotations, designed to foster innovative research in the domains of Life Sciences and Deep Learning. This dataset encompasses three image collections in which rodent neuronal cells' nuclei and cytoplasm are stained with diverse markers to highlight their anatomical or functional characteristics. Alongside the images, we provide ground-truth annotations for several learning tasks, including semantic segmentation, object detection, and counting. The contribution is two-fold. First, given the variety of annotations and their accessible formats, we envision our work facilitating methodological advancements in computer vision approaches for segmentation, detection, feature learning, unsupervised and self-supervised learning, transfer learning, and related areas. Second, by enabling extensive exploration and benchmarking, we hope Fluorescent Neuronal Cells v2 will catalyze breakthroughs in fluorescence microscopy analysis and promote cutting-edge discoveries in life sciences. The data are available at: https://amsacta.unibo.it/id/eprint/7347

Antonio Macaluso, Luca Clissa, Stefano Lodi et al.

Quantum Computing offers a new paradigm for efficient computing and many AI applications could benefit from its potential boost in performance. However, the main limitation is the constraint to linear operations that hampers the representation of complex relationships in data. In this work, we propose an efficient implementation of quantum splines for non-linear approximation. In particular, we first discuss possible parametrisations, and select the most convenient for exploiting the HHL algorithm to obtain the estimates of spline coefficients. Then, we investigate QSpline performance as an evaluation routine for some of the most popular activation functions adopted in ML. Finally, a detailed comparison with classical alternatives to the HHL is also presented.

R. Morelli, L. Clissa, M. Dalla et al.

Counting cells in fluorescent microscopy is a tedious, time-consuming task that researchers have to accomplish to assess the effects of different experimental conditions on biological structures of interest. Although such objects are generally easy to identify, the process of manually annotating cells is sometimes subject to arbitrariness due to the operator's interpretation of the borderline cases. We propose a Machine Learning approach that exploits a fully-convolutional network in a binary segmentation fashion to localize the objects of interest. Counts are then retrieved as the number of detected items. Specifically, we adopt a UNet-like architecture leveraging residual units and an extended bottleneck for enlarging the field-of-view. In addition, we make use of weighted maps that penalize the errors on cells boundaries increasingly with overcrowding. These changes provide more context and force the model to focus on relevant features during pixel-wise classification. As a result, the model performance is enhanced, especially in presence of clumping cells, artifacts and confounding biological structures. Posterior assessment of the results with domain experts confirms that the model detects cells of interest correctly. The model demonstrates a human-level ability inasmuch even erroneous predictions seem to fall within the limits of operator interpretation. This qualitative assessment is also corroborated by quantitative metrics as an ${F_1}$ score of 0.87. Despite some difficulties in interpretation, results are also satisfactory with respect to the counting task, as testified by mean and median absolute error of, respectively, 0.8 and 1.

Antonio Macaluso, Luca Clissa, Stefano Lodi et al.

A powerful way to improve performance in machine learning is to construct an ensemble that combines the predictions of multiple models. Ensemble methods are often much more accurate and lower variance than the individual classifiers that make them up but have high requirements in terms of memory and computational time. In fact, a large number of alternative algorithms is usually adopted, each requiring to query all available data. We propose a new quantum algorithm that exploits quantum superposition, entanglement and interference to build an ensemble of classification models. Thanks to the generation of the several quantum trajectories in superposition, we obtain $B$ transformations of the quantum state which encodes the training set in only $log\left(B\right)$ operations. This implies exponential growth of the ensemble size while increasing linearly the depth of the correspondent circuit. Furthermore, when considering the overall cost of the algorithm, we show that the training of a single weak classifier impacts additively the overall time complexity rather than multiplicatively, as it usually happens in classical ensemble methods. We also present small-scale experiments on real-world datasets, defining a quantum version of the cosine classifier and using the IBM qiskit environment to show how the algorithms work.