The cerebrospinal fluid (CSF) of 19 subjects who received a clinical diagnosis of Alzheimer's disease (AD) as well as of 5 pathological controls have been collected and analysed by Raman spectroscopy (RS). We investigated whether the raw and preprocessed Raman spectra could be used to distinguish AD from controls. First, we applied standard Machine Learning (ML) methods obtaining unsatisfactory results. Then, we applied ML to a set of topological descriptors extracted from raw spectra, achieving a very good classification accuracy (> 87%). Although our results are preliminary, they indicate that RS and topological analysis together may provide an effective combination to confirm or disprove a clinical diagnosis of AD. The next steps will include enlarging the dataset of CSF samples to validate the proposed method better and, possibly, to understand if topological data analysis could support the characterization of AD subtypes.

In recent years, many mammographic image analysis methods have been introduced for improving cancer classification tasks. Two major issues of mammogram classification tasks are leveraging multi-view mammographic information and class-imbalance handling. In the first problem, many multi-view methods have been released for concatenating features of two or more views for the training and inference stage. Having said that, most multi-view existing methods are not explainable in the meaning of feature fusion, and treat many views equally for diagnosing. Our work aims to propose a simple but novel method for enhancing examined view (main view) by leveraging low-level feature information from the auxiliary view (ipsilateral view) before learning the high-level feature that contains the cancerous features. For the second issue, we also propose a simple but novel malignant mammogram synthesis framework for upsampling minor class samples. Our easy-to-implement and no-training framework has eliminated the current limitation of the CutMix algorithm which is unreliable synthesized images with random pasted patches, hard-contour problems, and domain shift problems. Our results on VinDr-Mammo and CMMD datasets show the effectiveness of our two new frameworks for both multi-view training and synthesizing mammographic images, outperforming the previous conventional methods in our experimental settings.

I explore two questions in this thesis: how can computer science be used to fight human trafficking? And how can computer vision create a sense of touch? I use natural language processing (NLP) to monitor the United States illicit massage industry (IMI), a multi-billion dollar industry that offers not just therapeutic massages but also commercial sexual services. Employees of this industry are often immigrant women with few job opportunities, leaving them vulnerable to fraud, coercion, and other facets of human trafficking. Monitoring spatiotemporal trends helps prevent trafficking in the IMI. By creating datasets with three publicly-accessible websites: Google Places, Rubmaps, and AMPReviews, combined with NLP techniques such as bag-of-words and Word2Vec, I show how to derive insights into the labor pressures and language barriers that employees face, as well as the income, demographics, and societal pressures affecting sex buyers. I include a call-to-action to other researchers given these datasets. I also consider how to creating synthetic financial data, which can aid with counter-trafficking in the banking sector. I use an agent-based model to create both tabular and payee-recipient graph data. I then consider the role of computer vision in making tactile sensors. I report on a novel sensor, the Digger Finger, that adapts the Gelsight sensor to finding objects in granular media. Changes include using a wedge shape to facilitate digging, replacing the internal lighting LEDs with fluorescent paint, and adding a vibrator motor to counteract jamming. Finally, I also show how to use a webcam and a printed reference marker, or fiducial, to create a low-cost six-axis force-torque sensor. This sensor is up to a hundred times less expensive than commercial sensors, allowing for a wider range of applications. For this and earlier chapters I release design files and code as open source.

Multivariate time series classification is an important computational task arising in applications where data is recorded over time and over multiple channels. For example, a smartwatch can record the acceleration and orientation of a person's motion, and these signals are recorded as multivariate time series. We can classify this data to understand and predict human movement and various properties such as fitness levels. In many applications classification alone is not enough, we often need to classify but also understand what the model learns (e.g., why was a prediction given, based on what information in the data). The main focus of this paper is on analysing and evaluating explanation methods tailored to Multivariate Time Series Classification (MTSC). We focus on saliency-based explanation methods that can point out the most relevant channels and time series points for the classification decision. We analyse two popular and accurate multivariate time series classifiers, ROCKET and dResNet, as well as two popular explanation methods, SHAP and dCAM. We study these methods on 3 synthetic datasets and 2 real-world datasets and provide a quantitative and qualitative analysis of the explanations provided. We find that flattening the multivariate datasets by concatenating the channels works as well as using multivariate classifiers directly and adaptations of SHAP for MTSC work quite well. Additionally, we also find that the popular synthetic datasets we used are not suitable for time series analysis.

Performance metrics for medical image segmentation models are used to measure the agreement between the reference annotation and the predicted segmentation. Usually, overlap metrics, such as the Dice, are used as a metric to evaluate the performance of these models in order for results to be comparable. However, there is a mismatch between the distributions of cases and difficulty level of segmentation tasks in public data sets compared to clinical practice. Common metrics fail to measure the impact of this mismatch, especially for clinical data sets that include low signal pathologies, a difficult segmentation task, and uncertain, small, or empty reference annotations. This limitation may result in ineffective research of machine learning practitioners in designing and optimizing models. Dimensions of evaluating clinical value include consideration of the uncertainty of reference annotations, independence from reference annotation volume size, and evaluation of classification of empty reference annotations. We study how uncertain, small, and empty reference annotations influence the value of metrics for medical image segmentation on an in-house data set regardless of the model. We examine metrics behavior on the predictions of a standard deep learning framework in order to identify metrics with clinical value. We compare to a public benchmark data set (BraTS 2019) with a high-signal pathology and certain, larger, and no empty reference annotations. We may show machine learning practitioners, how uncertain, small, or empty reference annotations require a rethinking of the evaluation and optimizing procedures. The evaluation code was released to encourage further analysis of this topic. https://github.com/SophieOstmeier/UncertainSmallEmpty.git

Data is a critical asset in AI, as high-quality datasets can significantly improve the performance of machine learning models. In safety-critical domains such as autonomous vehicles, offline deep reinforcement learning (offline DRL) is frequently used to train models on pre-collected datasets, as opposed to training these models by interacting with the real-world environment as the online DRL. To support the development of these models, many institutions make datasets publicly available with opensource licenses, but these datasets are at risk of potential misuse or infringement. Injecting watermarks to the dataset may protect the intellectual property of the data, but it cannot handle datasets that have already been published and is infeasible to be altered afterward. Other existing solutions, such as dataset inference and membership inference, do not work well in the offline DRL scenario due to the diverse model behavior characteristics and offline setting constraints. In this paper, we advocate a new paradigm by leveraging the fact that cumulative rewards can act as a unique identifier that distinguishes DRL models trained on a specific dataset. To this end, we propose ORL-AUDITOR, which is the first trajectory-level dataset auditing mechanism for offline RL scenarios. Our experiments on multiple offline DRL models and tasks reveal the efficacy of ORL-AUDITOR, with auditing accuracy over 95% and false positive rates less than 2.88%. We also provide valuable insights into the practical implementation of ORL-AUDITOR by studying various parameter settings. Furthermore, we demonstrate the auditing capability of ORL-AUDITOR on open-source datasets from Google and DeepMind, highlighting its effectiveness in auditing published datasets. ORL-AUDITOR is open-sourced at https://github.com/link-zju/ORL-Auditor.

Dexterous manipulation tasks involving contact-rich interactions pose a significant challenge for both model-based control systems and imitation learning algorithms. The complexity arises from the need for multi-fingered robotic hands to dynamically establish and break contacts, balance non-prehensile forces, and control large degrees of freedom. Reinforcement learning (RL) offers a promising approach due to its general applicability and capacity to autonomously acquire optimal manipulation strategies. However, its real-world application is often hindered by the necessity to generate a large number of samples, reset the environment, and obtain reward signals. In this work, we introduce an efficient system for learning dexterous manipulation skills with RL to alleviate these challenges. The main idea of our approach is the integration of recent advances in sample-efficient RL and replay buffer bootstrapping. This combination allows us to utilize data from different tasks or objects as a starting point for training new tasks, significantly improving learning efficiency. Additionally, our system completes the real-world training cycle by incorporating learned resets via an imitation-based pickup policy as well as learned reward functions, eliminating the need for manual resets and reward engineering. We demonstrate the benefits of reusing past data as replay buffer initialization for new tasks, for instance, the fast acquisition of intricate manipulation skills in the real world on a four-fingered robotic hand. (Videos: https://sites.google.com/view/reboot-dexterous)

Causal machine learning (ML) algorithms recover graphical structures that tell us something about cause-and-effect relationships. The causal representation praovided by these algorithms enables transparency and explainability, which is necessary for decision making in critical real-world problems. Yet, causal ML has had limited impact in practice compared to associational ML. This paper investigates the challenges of causal ML with application to COVID-19 UK pandemic data. We collate data from various public sources and investigate what the various structure learning algorithms learn from these data. We explore the impact of different data formats on algorithms spanning different classes of learning, and assess the results produced by each algorithm, and groups of algorithms, in terms of graphical structure, model dimensionality, sensitivity analysis, confounding variables, predictive and interventional inference. We use these results to highlight open problems in causal structure learning and directions for future research. To facilitate future work, we make all graphs, models, data sets, and source code publicly available online.

Generative steganography (GS) is an emerging technique that generates stego images directly from secret data. Various GS methods based on GANs or Flow have been developed recently. However, existing GAN-based GS methods cannot completely recover the hidden secret data due to the lack of network invertibility, while Flow-based methods produce poor image quality due to the stringent reversibility restriction in each module. To address this issue, we propose a novel GS scheme called "Generative Steganography Diffusion" (GSD) by devising an invertible diffusion model named "StegoDiffusion". It not only generates realistic stego images but also allows for 100\% recovery of the hidden secret data. The proposed StegoDiffusion model leverages a non-Markov chain with a fast sampling technique to achieve efficient stego image generation. By constructing an ordinary differential equation (ODE) based on the transition probability of the generation process in StegoDiffusion, secret data and stego images can be converted to each other through the approximate solver of ODE -- Euler iteration formula, enabling the use of irreversible but more expressive network structures to achieve model invertibility. Our proposed GSD has the advantages of both reversibility and high performance, significantly outperforming existing GS methods in all metrics.

This paper proposes an extension of Random Projection Depth (RPD) to cope with multiple modalities and non-convexity on data clouds. In the framework of the proposed method, the RPD is computed in a reproducing kernel Hilbert space. With the help of kernel principal component analysis, we expect that the proposed method can cope with the above multiple modalities and non-convexity. The experimental results demonstrate that the proposed method outperforms RPD and is comparable to other existing detection models on benchmark datasets regarding Area Under the Curves (AUCs) of Receiver Operating Characteristic (ROC).