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Reproducibility of research is essential for science. However, in the way modern computational biology research is done, it is easy to lose track of small, but extremely critical, details. Key details, such as the specific version of a software used or iteration of a genome can easily be lost in the shuffle, or perhaps not noted at all. Much work is being done on the database and storage side of things, ensuring that there exists a space to store experiment-specific details, but current mechanisms for recording details are cumbersome for scientists to use. We propose a new metadata description language, named MEDFORD, in which scientists can record all details relevant to their research. Human-readable, easily-editable, and templatable, MEDFORD serves as a collection point for all notes that a researcher could find relevant to their research, be it for internal use or for future replication. MEDFORD has been applied to coral research, documenting research from RNA-seq analyses to photo collections.

Coordinated Multiple views (CMVs) are a visualization technique that simultaneously presents multiple visualizations in separate but linked views. There are many studies that report the advantages (e.g., usefulness for finding hidden relationships) and disadvantages (e.g., cognitive load) of CMVs. But little empirical work exists on the impact of the number of views on visual anlaysis results and processes, which results in uncertainty in the relationship between the view number and visual anlaysis. In this work, we aim at investigating the relationship between the number of coordinated views and users analytic processes and results. To achieve the goal, we implemented a CMV tool for visual anlaysis. We also provided visualization duplication in the tool to help users easily create a desired number of visualization views on-the-fly. We conducted a between-subject study with 44 participants, where we asked participants to solve five analytic problems using the visual tool. Through quantitative and qualitative analysis, we discovered the positive correlation between the number of views and analytic results. We also found that visualization duplication encourages users to create more views and to take various analysis strategies. Based on the results, we provide implications and limitations of our study.

Representation learning enables us to automatically extract generic feature representations from a dataset to solve another machine learning task. Recently, extracted feature representations by a representation learning algorithm and a simple predictor have exhibited state-of-the-art performance on several machine learning tasks. Despite its remarkable progress, there exist various ways to evaluate representation learning algorithms depending on the application because of the flexibility of representation learning. To understand the current representation learning, we review evaluation methods of representation learning algorithms and theoretical analyses. On the basis of our evaluation survey, we also discuss the future direction of representation learning. Note that this survey is the extended version of Nozawa and Sato (2022).

The concept of federated learning (FL) was first proposed by Google in 2016. Thereafter, FL has been widely studied for the feasibility of application in various fields due to its potential to make full use of data without compromising the privacy. However, limited by the capacity of wireless data transmission, the employment of federated learning on mobile devices has been making slow progress in practical. The development and commercialization of the 5th generation (5G) mobile networks has shed some light on this. In this paper, we analyze the challenges of existing federated learning schemes for mobile devices and propose a novel cross-device federated learning framework, which utilizes the anonymous communication technology and ring signature to protect the privacy of participants while reducing the computation overhead of mobile devices participating in FL. In addition, our scheme implements a contribution-based incentive mechanism to encourage mobile users to participate in FL. We also give a case study of autonomous driving. Finally, we present the performance evaluation of the proposed scheme and discuss some open issues in federated learning.

Federated learning (FL) has been recognized as a viable distributed learning paradigm which trains a machine learning model collaboratively with massive mobile devices in the wireless edge while protecting user privacy. Although various communication schemes have been proposed to expedite the FL process, most of them have assumed ideal wireless channels which provide reliable and lossless communication links between the server and mobile clients. Unfortunately, in practical systems with limited radio resources such as constraint on the training latency and constraints on the transmission power and bandwidth, transmission of a large number of model parameters inevitably suffers from quantization errors (QE) and transmission outage (TO). In this paper, we consider such non-ideal wireless channels, and carry out the first analysis showing that the FL convergence can be severely jeopardized by TO and QE, but intriguingly can be alleviated if the clients have uniform outage probabilities. These insightful results motivate us to propose a robust FL scheme, named FedTOE, which performs joint allocation of wireless resources and quantization bits across the clients to minimize the QE while making the clients have the same TO probability. Extensive experimental results are presented to show the superior performance of FedTOE for deep learning-based classification tasks with transmission latency constraints.

The coronavirus pandemic has spread over the past two years in our highly connected and information-dense society. Nonetheless, disseminating accurate and up-to-date information on the spread of this pandemic remains a challenge. In this context, opting for a solution based on conversational artificial intelligence, also known under the name of the chatbot, is proving to be an unavoidable solution, especially since it has already shown its effectiveness in fighting the coronavirus crisis in several countries. This work proposes to design and implement a smart chatbot on the theme of COVID-19, called COVIBOT, which will be useful in the context of Saudi Arabia. COVIBOT is a generative-based contextual chatbot, which is built using machine learning APIs that are offered by the cloud-based Azure Cognitive Services. Two versions of COVIBOT are offered: English and Arabic versions. Use cases of COVIBOT are tested and validated using a scenario-based approach.

During recent crises like COVID-19, microblogging platforms have become popular channels for affected people seeking assistance such as medical supplies and rescue operations from emergency responders and the public. Despite this common practice, the affordances of microblogging services for help-seeking during crises that needs immediate attention are not well understood. To fill this gap, we analyzed 8K posts from COVID-19 patients or caregivers requesting urgent medical assistance on Weibo, the largest microblogging site in China. Our mixed-methods analyses suggest that existing microblogging functions need to be improved in multiple aspects to sufficiently facilitate help-seeking in emergencies, including capabilities of search and tracking requests, ease of use, and privacy protection. We also find that people tend to stick to certain well-established functions for publishing requests, even after better alternatives emerge. These findings have implications for designing microblogging tools to better support help requesting and responding during crises.

Recent times are witnessing rapid development in machine learning algorithm systems, especially in reinforcement learning, natural language processing, computer and robot vision, image processing, speech, and emotional processing and understanding. In tune with the increasing importance and relevance of machine learning models, algorithms, and their applications, and with the emergence of more innovative uses cases of deep learning and artificial intelligence, the current volume presents a few innovative research works and their applications in real world, such as stock trading, medical and healthcare systems, and software automation. The chapters in the book illustrate how machine learning and deep learning algorithms and models are designed, optimized, and deployed. The volume will be useful for advanced graduate and doctoral students, researchers, faculty members of universities, practicing data scientists and data engineers, professionals, and consultants working on the broad areas of machine learning, deep learning, and artificial intelligence.

Machine learning plays a role in many deployed decision systems, often in ways that are difficult or impossible to understand by human stakeholders. Explaining, in a human-understandable way, the relationship between the input and output of machine learning models is essential to the development of trustworthy machine-learning-based systems. A burgeoning body of research seeks to define the goals and methods of explainability in machine learning. In this paper, we seek to review and categorize research on counterfactual explanations, a specific class of explanation that provides a link between what could have happened had input to a model been changed in a particular way. Modern approaches to counterfactual explainability in machine learning draw connections to the established legal doctrine in many countries, making them appealing to fielded systems in high-impact areas such as finance and healthcare. Thus, we design a rubric with desirable properties of counterfactual explanation algorithms and comprehensively evaluate all currently-proposed algorithms against that rubric. Our rubric provides easy comparison and comprehension of the advantages and disadvantages of different approaches and serves as an introduction to major research themes in this field. We also identify gaps and discuss promising research directions in the space of counterfactual explainability.

The demand for artificial intelligence has grown significantly over the last decade and this growth has been fueled by advances in machine learning techniques and the ability to leverage hardware acceleration. However, in order to increase the quality of predictions and render machine learning solutions feasible for more complex applications, a substantial amount of training data is required. Although small machine learning models can be trained with modest amounts of data, the input for training larger models such as neural networks grows exponentially with the number of parameters. Since the demand for processing training data has outpaced the increase in computation power of computing machinery, there is a need for distributing the machine learning workload across multiple machines, and turning the centralized into a distributed system. These distributed systems present new challenges, first and foremost the efficient parallelization of the training process and the creation of a coherent model. This article provides an extensive overview of the current state-of-the-art in the field by outlining the challenges and opportunities of distributed machine learning over conventional (centralized) machine learning, discussing the techniques used for distributed machine learning, and providing an overview of the systems that are available.