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The problem of algorithmic bias in machine learning has recently gained a lot of attention due to its potentially strong impact on our societies. In much the same manner, algorithmic biases can alter industrial and safety-critical machine learning applications, where high-dimensional inputs are used. This issue has, however, been mostly left out of the spotlight in the machine learning literature. Contrary to societal applications, where a set of potentially sensitive variables, such as gender or race, can be defined by common sense or by regulations to draw attention to potential risks, the sensitive variables are often unsuspected in industrial and safety-critical applications. In addition, these unsuspected sensitive variables may be indirectly represented as a latent feature of the input data. For instance, the predictions of an image classifier may be altered by reconstruction artefacts in a small subset of the training images. This raises serious and well-founded concerns about the commercial deployment of AI-based solutions, especially in a context where new regulations address bias issues in AI. The purpose of our paper is, then, to first give a large overview of recent advances in robust machine learning. Then, we propose a new procedure to detect and to treat such unknown biases. As far as we know, no equivalent procedure has been proposed in the literature so far. The procedure is also generic enough to be used in a wide variety of industrial contexts. Its relevance is demonstrated on a set of satellite images used to train a classifier. In this illustration, our technique detects that a subset of the training images has reconstruction faults, leading to systematic prediction errors that would have been unsuspected using conventional cross-validation techniques.

Abstract The SARS-CoV-2 virus has spread world-wide since December 2019, killing more than 2.9 million of people. We have adapted a statistical model from the SIR epidemiological models to predict the spread of SARS-CoV-2 in France. Our model is based on several parameters and assumed a 4.2% seroprevalence in Occitania after the first lockdown. The recent use of serological tests to measure the effective seroprevalence of SARS-CoV-2 in the population of Occitania has led to a seroprevalence around 2.4%. This implies to review the parameters of our model to conclude at a lower than expected virus transmission rate, which may be due to infectivity varying with the patient’s symptoms or to a constraint due to an uneven population geographical distribution.

Abstract Background Data obtained from flow cytometry present pronounced variability due to biological and technical reasons. Biological variability is a well-known phenomenon produced by measurements on different individuals, with different characteristics such as illness, age, sex, etc. The use of different settings for measurement, the variation of the conditions during experiments and the different types of flow cytometers are some of the technical causes of variability. This mixture of sources of variability makes the use of supervised machine learning for identification of cell populations difficult. The present work is conceived as a combination of strategies to facilitate the task of supervised gating. Results We propose optimalFlowTemplates, based on a similarity distance and Wasserstein barycenters, which clusters cytometries and produces prototype cytometries for the different groups. We show that supervised learning, restricted to the new groups, performs better than the same techniques applied to the whole collection. We also present optimalFlowClassification, which uses a database of gated cytometries and optimalFlowTemplates to assign cell types to a new cytometry. We show that this procedure can outperform state of the art techniques in the proposed datasets. Our code is freely available as optimalFlow, a Bioconductor R package at https://bioconductor.org/packages/optimalFlow . Conclusions optimalFlowTemplates + optimalFlowClassification addresses the problem of using supervised learning while accounting for biological and technical variability. Our methodology provides a robust automated gating workflow that handles the intrinsic variability of flow cytometry data well. Our main innovation is the methodology itself and the optimal transport techniques that we apply to flow cytometry analysis.

Automatic recommendation systems based on deep neural networks have become extremely popular during the last decade. Some of these systems can, however, be used in applications that are ranked as High Risk by the European Commission in the AI act—for instance, online job candidate recommendations. When used in the European Union, commercial AI systems in such applications will be required to have proper statistical properties with regard to the potential discrimination they could engender. This motivated our contribution. We present a novel optimal transport strategy to mitigate undesirable algorithmic biases in multi-class neural network classification. Our strategy is model agnostic and can be used on any multi-class classification neural network model. To anticipate the certification of recommendation systems using textual data, we used it on the Bios dataset, for which the learning task consists of predicting the occupation of female and male individuals, based on their LinkedIn biography. The results showed that our approach can reduce undesired algorithmic biases in this context to lower levels than a standard strategy.

The spread of SARS-CoV-2 and the resulting disease COVID-19 has killed over 2.6 million people as of 18 March 2021. We have used a modified susceptible, infected, recovered (SIR) epidemiological model to predict how the spread of the virus in regions of France will vary depending on the proportions of variants and on the public health strategies adopted, including anti-COVID-19 vaccination. The proportion of SARS-CoV-2 variant B.1.1.7, which was not detected in early January, increased to become 60% of the forms of SARS-CoV-2 circulating in the Toulouse urban area at the beginning of February 2021, but there was no increase in positive nucleic acid tests. Our prediction model indicates that maintaining public health measures and accelerating vaccination are efficient strategies for the sustained control of SARS-CoV-2.

In this paper, we present a new framework dedicated to the robust detection of representative variables in high dimensional spaces with a potentially limited number of observations. Representative variables are selected by using an original regularization strategy: they are the center of specific variable clusters, denoted CORE-clusters, which respect fully interpretable constraints. Each CORE-cluster indeed contains more than a predefined amount of variables and each pair of its variables has a coherent behavior in the observed data. The key advantage of our regularization strategy is therefore that it only requires to tune two intuitive parameters: the minimal dimension of the CORE-clusters and the minimum level of similarity which gathers their variables. Interpreting the role played by a selected representative variable is additionally obvious as it has a similar observed behaviour as a controlled number of other variables. After introducing and justifying this variable selection formalism, we propose two algorithmic strategies to detect the CORE-clusters, one of them scaling particularly well to high-dimensional data. Results obtained on synthetic as well as real data are finally presented.