Parisa Movahedi

Katariina Perkonoja, Parisa Movahedi, Antti Airola et al.

This study introduces a set of metrics for evaluating temporal preservation in synthetic longitudinal patient data, defined as artificially generated data that mimic real patients' repeated measurements over time. The proposed metrics assess how synthetic data reproduces key temporal characteristics, categorized into marginal, covariance, individual-level and measurement structures. We show that strong marginal-level resemblance may conceal distortions in covariance and disruptions in individual-level trajectories. Temporal preservation is influenced by factors such as original data quality, measurement frequency, and preprocessing strategies, including binning, variable encoding and precision. Variables with sparse or highly irregular measurement times provide limited information for learning temporal dependencies, resulting in reduced resemblance between the synthetic and original data. No single metric adequately captures temporal preservation; instead, a multidimensional evaluation across all characteristics provides a more comprehensive assessment of synthetic data quality. Overall, the proposed metrics clarify how and why temporal structures are preserved or degraded, enabling more reliable evaluation and improvement of generative models and supporting the creation of temporally realistic synthetic longitudinal patient data.

Ileana Montoya Perez, Parisa Movahedi, Valtteri Nieminen et al.

Background: Synthetic data has been proposed as a solution for sharing anonymized versions of sensitive biomedical datasets. Ideally, synthetic data should preserve the structure and statistical properties of the original data, while protecting the privacy of the individual subjects. Differential privacy (DP) is currently considered the gold standard approach for balancing this trade-off. Objectives: To investigate the reliability of group differences identified by independent sample tests on DP-synthetic data. The evaluation is conducted in terms of the tests' Type I and Type II errors. The former quantifies the tests' validity i.e. whether the probability of false discoveries is indeed below the significance level, and the latter indicates the tests' power in making real discoveries. Methods: We evaluate the Mann-Whitney U test, Student's t-test, chi-squared test and median test on DP-synthetic data. The private synthetic datasets are generated from real-world data, including a prostate cancer dataset (n=500) and a cardiovascular dataset (n=70 000), as well as on bivariate and multivariate simulated data. Five different DP-synthetic data generation methods are evaluated, including two basic DP histogram release methods and MWEM, Private-PGM, and DP GAN algorithms. Conclusion: A large portion of the evaluation results expressed dramatically inflated Type I errors, especially at privacy budget levels of $ε\leq 1$. This result calls for caution when releasing and analyzing DP-synthetic data: low p-values may be obtained in statistical tests simply as a byproduct of the noise added to protect privacy. A DP smoothed histogram-based synthetic data generation method was shown to produce valid Type I error for all privacy levels tested but required a large original dataset size and a modest privacy budget ($ε\geq 5$) in order to have reasonable Type II error.

Tapio Pahikkala, Riikka Numminen, Parisa Movahedi et al.

Consider two sets of entities and their members' mutual affinity values, say drug-target affinities (DTA). Drugs and targets are said to interact in their effects on DTAs if drug's effect on it depends on the target. Presence of interaction implies that assigning a drug to a target and another drug to another target does not provide the same aggregate DTA as the reversed assignment would provide. Accordingly, correctly capturing interactions enables better decision-making, for example, in allocation of limited numbers of drug doses to their best matching targets. Learning to predict DTAs is popularly done from either solely from known DTAs or together with side information on the entities, such as chemical structures of drugs and targets. In this paper, we introduce interaction directions' prediction performance estimator we call interaction concordance index (IC-index), for both fixed predictors and machine learning algorithms aimed for inferring them. IC-index complements the popularly used DTA prediction performance estimators by evaluating the ratio of correctly predicted directions of interaction effects in data. First, we show the invariance of IC-index on predictors unable to capture interactions. Secondly, we show that learning algorithm's permutation equivariance regarding drug and target identities implies its inability to capture interactions when either drug, target or both are unseen during training. In practical applications, this equivariance is remedied via incorporation of appropriate side information on drugs and targets. We make a comprehensive empirical evaluation over several biomedical interaction data sets with various state-of-the-art machine learning algorithms. The experiments demonstrate how different types of affinity strength prediction methods perform in terms of IC-index complementing existing prediction performance estimators.

Tapio Pahikkala, Parisa Movahedi, Ileana Montoya et al.

How many different binary classification problems a single learning algorithm can solve on a fixed data with exactly zero or at most a given number of cross-validation errors? While the number in the former case is known to be limited by the no-free-lunch theorem, we show that the exact answers are given by the theory of error detecting codes. As a case study, we focus on the AUC performance measure and leave-pair-out cross-validation (LPOCV), in which every possible pair of data with different class labels is held out at a time. We show that the maximal number of classification problems with fixed class proportion, for which a learning algorithm can achieve zero LPOCV error, equals the maximal number of code words in a constant weight code (CWC), with certain technical properties. We then generalize CWCs by introducing light CWCs, and prove an analogous result for nonzero LPOCV errors and light CWCs. Moreover, we prove both upper and lower bounds on the maximal numbers of code words in light CWCs. Finally, as an immediate practical application, we develop new LPOCV based randomization tests for learning algorithms that generalize the classical Wilcoxon-Mann-Whitney U test.

Paavo Nevalainen, Parisa Movahedi, Jorge Peña Queralta et al.

Vehicles with prolonged autonomous missions have to maintain environment awareness by simultaneous localization and mapping (SLAM). Closed loop correction is substituted by interpolation in rigid body transformation space in order to systematically reduce the accumulated error over different scales. The computation is divided to an edge computed lightweight SLAM and iterative corrections in the cloud environment. Tree locations in the forest environment are sent via a potentially limited communication bandwidths. Data from a real forest site is used in the verification of the proposed algorithm. The algorithm adds new iterative closest point (ICP) cases to the initial SLAM and measures the resulting map quality by the mean of the root mean squared error (RMSE) of individual tree clusters. Adding 4% more match cases yields the mean RMSE 0.15 m on a large site with 180 m odometric distance.