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1. The Deep Learning Epilepsy Detection Challenge: Design, Implementation, and Test of a New Crowd-Sourced AI Challenge Ecosystem

   Kiral, Isabell ; Roy, Subhrajit ; Mummert, Todd ; Braz, Alan ; Tsay, Jason ; Tang, Jianbin ; Asif, Umar ; Schaffter, Thomas ; Mehmet, Eren ; Picone, Joseph ; et al ( April 2019 , Challenges in Machine Learning Competitions for All (CiML))

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   The DeepLearningEpilepsyDetectionChallenge: design, implementation, andtestofanewcrowd-sourced AIchallengeecosystem Isabell Kiral*, Subhrajit Roy*, Todd Mummert*, Alan Braz*, Jason Tsay, Jianbin Tang, Umar Asif, Thomas Schaffter, Eren Mehmet, The IBM Epilepsy Consortium◊ , Joseph Picone, Iyad Obeid, Bruno De Assis Marques, Stefan Maetschke, Rania Khalaf†, Michal Rosen-Zvi† , Gustavo Stolovitzky† , Mahtab Mirmomeni† , Stefan Harrer† * These authors contributed equally to this work † Corresponding authors: rkhalaf@us.ibm.com, rosen@il.ibm.com, gustavo@us.ibm.com, mahtabm@au1.ibm.com, sharrer@au.ibm.com ◊ Members of the IBM Epilepsy Consortium are listed in the Acknowledgements section J. Picone and I. Obeid are with Temple University, USA. T. Schaffter is with Sage Bionetworks, USA. E. Mehmet is with the University of Illinois at Urbana-Champaign, USA. All other authors are with IBM Research in USA, Israel and Australia. Introduction This decade has seen an ever-growing number of scientific fields benefitting from the advances in machine learning technology and tooling. More recently, this trend reached the medical domain, with applications reaching from cancer diagnosis [1] to the development of brain-machine-interfaces [2]. While Kaggle has pioneered the crowd-sourcing of machine learning challenges to incentivise data scientists from around the world to advance algorithm and model design, the increasing complexity of problem statements demands of participants to be expert data scientists, deeply knowledgeable in at least one other scientific domain, and competent software engineers with access to large compute resources. People who match this description are few and far between, unfortunately leading to a shrinking pool of possible participants and a loss of experts dedicating their time to solving important problems. Participation is even further restricted in the context of any challenge run on confidential use cases or with sensitive data. Recently, we designed and ran a deep learning challenge to crowd-source the development of an automated labelling system for brain recordings, aiming to advance epilepsy research. A focus of this challenge, run internally in IBM, was the development of a platform that lowers the barrier of entry and therefore mitigates the risk of excluding interested parties from participating. The challenge: enabling wide participation With the goal to run a challenge that mobilises the largest possible pool of participants from IBM (global), we designed a use case around previous work in epileptic seizure prediction [3]. In this “Deep Learning Epilepsy Detection Challenge”, participants were asked to develop an automatic labelling system to reduce the time a clinician would need to diagnose patients with epilepsy. Labelled training and blind validation data for the challenge were generously provided by Temple University Hospital (TUH) [4]. TUH also devised a novel scoring metric for the detection of seizures that was used as basis for algorithm evaluation [5]. In order to provide an experience with a low barrier of entry, we designed a generalisable challenge platform under the following principles: 1. No participant should need to have in-depth knowledge of the specific domain. (i.e. no participant should need to be a neuroscientist or epileptologist.) 2. No participant should need to be an expert data scientist. 3. No participant should need more than basic programming knowledge. (i.e. no participant should need to learn how to process fringe data formats and stream data efficiently.) 4. No participant should need to provide their own computing resources. In addition to the above, our platform should further • guide participants through the entire process from sign-up to model submission, • facilitate collaboration, and • provide instant feedback to the participants through data visualisation and intermediate online leaderboards. The platform The architecture of the platform that was designed and developed is shown in Figure 1. The entire system consists of a number of interacting components. (1) A web portal serves as the entry point to challenge participation, providing challenge information, such as timelines and challenge rules, and scientific background. The portal also facilitated the formation of teams and provided participants with an intermediate leaderboard of submitted results and a final leaderboard at the end of the challenge. (2) IBM Watson Studio [6] is the umbrella term for a number of services offered by IBM. Upon creation of a user account through the web portal, an IBM Watson Studio account was automatically created for each participant that allowed users access to IBM's Data Science Experience (DSX), the analytics engine Watson Machine Learning (WML), and IBM's Cloud Object Storage (COS) [7], all of which will be described in more detail in further sections. (3) The user interface and starter kit were hosted on IBM's Data Science Experience platform (DSX) and formed the main component for designing and testing models during the challenge. DSX allows for real-time collaboration on shared notebooks between team members. A starter kit in the form of a Python notebook, supporting the popular deep learning libraries TensorFLow [8] and PyTorch [9], was provided to all teams to guide them through the challenge process. Upon instantiation, the starter kit loaded necessary python libraries and custom functions for the invisible integration with COS and WML. In dedicated spots in the notebook, participants could write custom pre-processing code, machine learning models, and post-processing algorithms. The starter kit provided instant feedback about participants' custom routines through data visualisations. Using the notebook only, teams were able to run the code on WML, making use of a compute cluster of IBM's resources. The starter kit also enabled submission of the final code to a data storage to which only the challenge team had access. (4) Watson Machine Learning provided access to shared compute resources (GPUs). Code was bundled up automatically in the starter kit and deployed to and run on WML. WML in turn had access to shared storage from which it requested recorded data and to which it stored the participant's code and trained models. (5) IBM's Cloud Object Storage held the data for this challenge. Using the starter kit, participants could investigate their results as well as data samples in order to better design custom algorithms. (6) Utility Functions were loaded into the starter kit at instantiation. This set of functions included code to pre-process data into a more common format, to optimise streaming through the use of the NutsFlow and NutsML libraries [10], and to provide seamless access to the all IBM services used. Not captured in the diagram is the final code evaluation, which was conducted in an automated way as soon as code was submitted though the starter kit, minimising the burden on the challenge organising team. Figure 1: High-level architecture of the challenge platform Measuring success The competitive phase of the "Deep Learning Epilepsy Detection Challenge" ran for 6 months. Twenty-five teams, with a total number of 87 scientists and software engineers from 14 global locations participated. All participants made use of the starter kit we provided and ran algorithms on IBM's infrastructure WML. Seven teams persisted until the end of the challenge and submitted final solutions. The best performing solutions reached seizure detection performances which allow to reduce hundred-fold the time eliptologists need to annotate continuous EEG recordings. Thus, we expect the developed algorithms to aid in the diagnosis of epilepsy by significantly shortening manual labelling time. Detailed results are currently in preparation for publication. Equally important to solving the scientific challenge, however, was to understand whether we managed to encourage participation from non-expert data scientists. Figure 2: Primary occupation as reported by challenge participants Out of the 40 participants for whom we have occupational information, 23 reported Data Science or AI as their main job description, 11 reported being a Software Engineer, and 2 people had expertise in Neuroscience. Figure 2 shows that participants had a variety of specialisations, including some that are in no way related to data science, software engineering, or neuroscience. No participant had deep knowledge and experience in data science, software engineering and neuroscience. Conclusion Given the growing complexity of data science problems and increasing dataset sizes, in order to solve these problems, it is imperative to enable collaboration between people with differences in expertise with a focus on inclusiveness and having a low barrier of entry. We designed, implemented, and tested a challenge platform to address exactly this. Using our platform, we ran a deep-learning challenge for epileptic seizure detection. 87 IBM employees from several business units including but not limited to IBM Research with a variety of skills, including sales and design, participated in this highly technical challenge. 

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2. A misfire-integrated Gaussian process (MInt-GP) emulator for energy-assisted compression ignition (EACI) engines with varying cetane number jet fuels

   https://doi.org/10.1177/14680874241229514  

   Narayanan, Sai Ranjeet ; Ji, Yi ; Sapra, Harsh Darshan ; Kweon, Chol-Bum Mike ; Kim, Kenneth S. ; Sun, Zongxuan ; Kokjohn, Sage ; Mak, Simon ; Yang, Suo ( February 2024 , International Journal of Engine Research)

   For energy-assisted compression ignition (EACI) engine propulsion at high-altitude operating conditions using sustainable jet fuels with varying cetane numbers, it is essential to develop an efficient engine control system for robust and optimal operation. Control systems are typically trained using experimental data, which can be costly and time consuming to generate due to setup time of experiments, unforeseen delays/issues with manufacturing, mishaps/engine failures and the consequent repairs (which can take weeks), and errors in measurements. Computational fluid dynamics (CFD) simulations can overcome such burdens by complementing experiments with simulated data for control system training. Such simulations, however, can be computationally expensive. Existing data-driven machine learning (ML) models have shown promise for emulating the expensive CFD simulator, but encounter key limitations here due to the expensive nature of the training data and the range of differing combustion behaviors (e.g. misfires and partial/delayed ignition) observed at such broad operating conditions. We thus develop a novel physics-integrated emulator, called the Misfire-Integrated GP (MInt-GP), which integrates important auxiliary information on engine misfires within a Gaussian process surrogate model. With limited CFD training data, we show the MInt-GP model can yield reliable predictions of in-cylinder pressure evolution profiles and subsequent heat release profiles and engine CA50 predictions at a broad range of input conditions. We further demonstrate much better prediction capabilities of the MInt-GP at different combustion behaviors compared to existing data-driven ML models such as kriging and neural networks, while also observing up to 80 times computational speed-up over CFD, thus establishing its effectiveness as a tool to assist CFD for fast data generation in control system training.

    

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3. Design representation for performance evaluation of 3D shapes in structure-aware generative design

   https://doi.org/10.1017/dsj.2023.25  

   Li, Xingang ; Xie, Charles ; Sha, Zhenghui ( January 2023 , Design Science)

   Data-driven generative design (DDGD) methods utilize deep neural networks to create novel designs based on existing data. The structure-aware DDGD method can handle complex geometries and automate the assembly of separate components into systems, showing promise in facilitating creative designs. However, determining the appropriate vectorized design representation (VDR) to evaluate 3D shapes generated from the structure-aware DDGD model remains largely unexplored. To that end, we conducted a comparative analysis of surrogate models’ performance in predicting the engineering performance of 3D shapes using VDRs from two sources: the trained latent space of structure-aware DDGD models encoding structural and geometric information and an embedding method encoding only geometric information. We conducted two case studies: one involving 3D car models focusing on drag coefficients and the other involving 3D aircraft models considering both drag and lift coefficients. Our results demonstrate that using latent vectors as VDRs can significantly deteriorate surrogate models’ predictions. Moreover, increasing the dimensionality of the VDRs in the embedding method may not necessarily improve the prediction, especially when the VDRs contain more information irrelevant to the engineering performance. Therefore, when selecting VDRs for surrogate modeling, the latent vectors obtained from training structure-aware DDGD models must be used with caution, although they are more accessible once training is complete. The underlying physics associated with the engineering performance should be paid attention. This paper provides empirical evidence for the effectiveness of different types of VDRs of structure-aware DDGD for surrogate modeling, thus facilitating the construction of better surrogate models for AI-generated designs.

    

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4. Interactive hydrological modelling and simulation on client-side web systems: an educational case study

   https://doi.org/10.2166/hydro.2022.061  

   Ewing, Gregory ; Mantilla, Ricardo ; Krajewski, Witold ; Demir, Ibrahim ( November 2022 , Journal of Hydroinformatics)

   Computational hydrological models and simulations are fundamental pieces of the workflow of contemporary hydroscience research, education, and professional engineering activities. In support of hydrological modelling efforts, web-enabled tools for data processing, storage, computation, and visualization have proliferated. Most of these efforts rely on server resources for computation and data tasks and client-side resources for visualization. However, continued advancements of in-browser, client-side compute performance present an opportunity to further leverage client-side resources. Towards this end, we present an operational rainfall-runoff model and simulation engine running entirely on the client side using the JavaScript programming language. To demonstrate potential uses, we also present an easy-to-use in-browser interface designed for hydroscience education. Although the use case presented here is self-contained, the core technologies can extend to leverage multi-core processing on single machines and parallelization capabilities of multiple clients or JavaScript-enabled servers. These possibilities suggest that client-side hydrological simulation can play a central role in a dynamic, interconnected ecosystem of web-ready hydrological tools.

    

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5. Deep reinforcement learning for modeling human locomotion control in neuromechanical simulation

   https://doi.org/10.1186/s12984-021-00919-y  

   Song, Seungmoon ; Kidziński, Łukasz ; Peng, Xue Bin ; Ong, Carmichael ; Hicks, Jennifer ; Levine, Sergey ; Atkeson, Christopher G. ; Delp, Scott L. ( December 2021 , Journal of NeuroEngineering and Rehabilitation)

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   Abstract Modeling human motor control and predicting how humans will move in novel environments is a grand scientific challenge. Researchers in the fields of biomechanics and motor control have proposed and evaluated motor control models via neuromechanical simulations, which produce physically correct motions of a musculoskeletal model. Typically, researchers have developed control models that encode physiologically plausible motor control hypotheses and compared the resulting simulation behaviors to measurable human motion data. While such plausible control models were able to simulate and explain many basic locomotion behaviors (e.g. walking, running, and climbing stairs), modeling higher layer controls (e.g. processing environment cues, planning long-term motion strategies, and coordinating basic motor skills to navigate in dynamic and complex environments) remains a challenge. Recent advances in deep reinforcement learning lay a foundation for modeling these complex control processes and controlling a diverse repertoire of human movement; however, reinforcement learning has been rarely applied in neuromechanical simulation to model human control. In this paper, we review the current state of neuromechanical simulations, along with the fundamentals of reinforcement learning, as it applies to human locomotion. We also present a scientific competition and accompanying software platform, which we have organized to accelerate the use of reinforcement learning in neuromechanical simulations. This “Learn to Move” competition was an official competition at the NeurIPS conference from 2017 to 2019 and attracted over 1300 teams from around the world. Top teams adapted state-of-the-art deep reinforcement learning techniques and produced motions, such as quick turning and walk-to-stand transitions, that have not been demonstrated before in neuromechanical simulations without utilizing reference motion data. We close with a discussion of future opportunities at the intersection of human movement simulation and reinforcement learning and our plans to extend the Learn to Move competition to further facilitate interdisciplinary collaboration in modeling human motor control for biomechanics and rehabilitation research 

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