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1. Towards Dynamic Crowd Mobility Learning and Meta Model Updates for A Smart Connected Campus

   Yang, X. ; He, S. ; Tabatabaie, M. ; Wang, B. ( October 2022 , International Conference on Embedded Wireless Systems and Networks EWSN)

   In this paper, we propose MetaMobi, a novel spatio-temporal multi-dots connectivity-aware modeling and Meta model update approach for crowd Mobility learning. MetaMobi analyzes real-world Wi-Fi association data collected from our campus wireless infrastructure, with the goal towards enabling a smart connected campus. Specifically, MetaMobi aims at addressing the following two major challenges with existing crowd mobility sensing system designs: (a) how to handle the spatially, temporally, and contextually varying features in large-scale human crowd mobility distributions; and (b) how to adapt to the impacts of such crowd mobility patterns as well as the dynamic changes in crowd sensing infrastructures. To handle the first challenge, we design a novel multi-dots connectivity-aware learning approach, which jointly learns the crowd flow time series of multiple buildings with fusion of spatial graph connectivities and temporal attention mechanisms. Furthermore, to overcome the adaptivity issues due to changes in the crowd sensing infrastructures (e.g., installation of new ac- cess points), we further design a novel meta model update approach with Bernoulli dropout, which mitigates the over- fitting behaviors of the model given few-shot distributions of new crowd mobility datasets. Extensive experimental evaluations based on the real-world campus wireless dataset (including over 76 million Wi-Fi association andmore »disassociation records) demonstrate the accuracy, effectiveness, and adaptivity of MetaMobi in forecasting the campus crowd flows, with 30% higher accuracy compared to the state-of-the-art approaches.« less
2. A Deep Learning-Based Real-time Seizure Detection System

   https://doi.org/10.1109/SPMB50085.2020.9353623  

   Shawki, N. ; Elseify, T. ; Cap, T. ; Shah, V. ; Obeid, I. ; Picone, J. ( December 2020 , Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB))

   Obeid, Iyad Selesnick (Ed.)

   Electroencephalography (EEG) is a popular clinical monitoring tool used for diagnosing brain-related disorders such as epilepsy [1]. As monitoring EEGs in a critical-care setting is an expensive and tedious task, there is a great interest in developing real-time EEG monitoring tools to improve patient care quality and efficiency [2]. However, clinicians require automatic seizure detection tools that provide decisions with at least 75% sensitivity and less than 1 false alarm (FA) per 24 hours [3]. Some commercial tools recently claim to reach such performance levels, including the Olympic Brainz Monitor [4] and Persyst 14 [5]. In this abstract, we describe our efforts to transform a high-performance offline seizure detection system [3] into a low latency real-time or online seizure detection system. An overview of the system is shown in Figure 1. The main difference between an online versus offline system is that an online system should always be causal and has minimum latency which is often defined by domain experts. The offline system, shown in Figure 2, uses two phases of deep learning models with postprocessing [3]. The channel-based long short term memory (LSTM) model (Phase 1 or P1) processes linear frequency cepstral coefficients (LFCC) [6] features from each EEGmore »channel separately. We use the hypotheses generated by the P1 model and create additional features that carry information about the detected events and their confidence. The P2 model uses these additional features and the LFCC features to learn the temporal and spatial aspects of the EEG signals using a hybrid convolutional neural network (CNN) and LSTM model. Finally, Phase 3 aggregates the results from both P1 and P2 before applying a final postprocessing step. The online system implements Phase 1 by taking advantage of the Linux piping mechanism, multithreading techniques, and multi-core processors. To convert Phase 1 into an online system, we divide the system into five major modules: signal preprocessor, feature extractor, event decoder, postprocessor, and visualizer. The system reads 0.1-second frames from each EEG channel and sends them to the feature extractor and the visualizer. The feature extractor generates LFCC features in real time from the streaming EEG signal. Next, the system computes seizure and background probabilities using a channel-based LSTM model and applies a postprocessor to aggregate the detected events across channels. The system then displays the EEG signal and the decisions simultaneously using a visualization module. The online system uses C++, Python, TensorFlow, and PyQtGraph in its implementation. The online system accepts streamed EEG data sampled at 250 Hz as input. The system begins processing the EEG signal by applying a TCP montage [8]. Depending on the type of the montage, the EEG signal can have either 22 or 20 channels. To enable the online operation, we send 0.1-second (25 samples) length frames from each channel of the streamed EEG signal to the feature extractor and the visualizer. Feature extraction is performed sequentially on each channel. The signal preprocessor writes the sample frames into two streams to facilitate these modules. In the first stream, the feature extractor receives the signals using stdin. In parallel, as a second stream, the visualizer shares a user-defined file with the signal preprocessor. This user-defined file holds raw signal information as a buffer for the visualizer. The signal preprocessor writes into the file while the visualizer reads from it. Reading and writing into the same file poses a challenge. The visualizer can start reading while the signal preprocessor is writing into it. To resolve this issue, we utilize a file locking mechanism in the signal preprocessor and visualizer. Each of the processes temporarily locks the file, performs its operation, releases the lock, and tries to obtain the lock after a waiting period. The file locking mechanism ensures that only one process can access the file by prohibiting other processes from reading or writing while one process is modifying the file [9]. The feature extractor uses circular buffers to save 0.3 seconds or 75 samples from each channel for extracting 0.2-second or 50-sample long center-aligned windows. The module generates 8 absolute LFCC features where the zeroth cepstral coefficient is replaced by a temporal domain energy term. For extracting the rest of the features, three pipelines are used. The differential energy feature is calculated in a 0.9-second absolute feature window with a frame size of 0.1 seconds. The difference between the maximum and minimum temporal energy terms is calculated in this range. Then, the first derivative or the delta features are calculated using another 0.9-second window. Finally, the second derivative or delta-delta features are calculated using a 0.3-second window [6]. The differential energy for the delta-delta features is not included. In total, we extract 26 features from the raw sample windows which add 1.1 seconds of delay to the system. We used the Temple University Hospital Seizure Database (TUSZ) v1.2.1 for developing the online system [10]. The statistics for this dataset are shown in Table 1. A channel-based LSTM model was trained using the features derived from the train set using the online feature extractor module. A window-based normalization technique was applied to those features. In the offline model, we scale features by normalizing using the maximum absolute value of a channel [11] before applying a sliding window approach. Since the online system has access to a limited amount of data, we normalize based on the observed window. The model uses the feature vectors with a frame size of 1 second and a window size of 7 seconds. We evaluated the model using the offline P1 postprocessor to determine the efficacy of the delayed features and the window-based normalization technique. As shown by the results of experiments 1 and 4 in Table 2, these changes give us a comparable performance to the offline model. The online event decoder module utilizes this trained model for computing probabilities for the seizure and background classes. These posteriors are then postprocessed to remove spurious detections. The online postprocessor receives and saves 8 seconds of class posteriors in a buffer for further processing. It applies multiple heuristic filters (e.g., probability threshold) to make an overall decision by combining events across the channels. These filters evaluate the average confidence, the duration of a seizure, and the channels where the seizures were observed. The postprocessor delivers the label and confidence to the visualizer. The visualizer starts to display the signal as soon as it gets access to the signal file, as shown in Figure 1 using the “Signal File” and “Visualizer” blocks. Once the visualizer receives the label and confidence for the latest epoch from the postprocessor, it overlays the decision and color codes that epoch. The visualizer uses red for seizure with the label SEIZ and green for the background class with the label BCKG. Once the streaming finishes, the system saves three files: a signal file in which the sample frames are saved in the order they were streamed, a time segmented event (TSE) file with the overall decisions and confidences, and a hypotheses (HYP) file that saves the label and confidence for each epoch. The user can plot the signal and decisions using the signal and HYP files with only the visualizer by enabling appropriate options. For comparing the performance of different stages of development, we used the test set of TUSZ v1.2.1 database. It contains 1015 EEG records of varying duration. The any-overlap performance [12] of the overall system shown in Figure 2 is 40.29% sensitivity with 5.77 FAs per 24 hours. For comparison, the previous state-of-the-art model developed on this database performed at 30.71% sensitivity with 6.77 FAs per 24 hours [3]. The individual performances of the deep learning phases are as follows: Phase 1’s (P1) performance is 39.46% sensitivity and 11.62 FAs per 24 hours, and Phase 2 detects seizures with 41.16% sensitivity and 11.69 FAs per 24 hours. We trained an LSTM model with the delayed features and the window-based normalization technique for developing the online system. Using the offline decoder and postprocessor, the model performed at 36.23% sensitivity with 9.52 FAs per 24 hours. The trained model was then evaluated with the online modules. The current performance of the overall online system is 45.80% sensitivity with 28.14 FAs per 24 hours. Table 2 summarizes the performances of these systems. The performance of the online system deviates from the offline P1 model because the online postprocessor fails to combine the events as the seizure probability fluctuates during an event. The modules in the online system add a total of 11.1 seconds of delay for processing each second of the data, as shown in Figure 3. In practice, we also count the time for loading the model and starting the visualizer block. When we consider these facts, the system consumes 15 seconds to display the first hypothesis. The system detects seizure onsets with an average latency of 15 seconds. Implementing an automatic seizure detection model in real time is not trivial. We used a variety of techniques such as the file locking mechanism, multithreading, circular buffers, real-time event decoding, and signal-decision plotting to realize the system. A video demonstrating the system is available at: https://www.isip.piconepress.com/projects/nsf_pfi_tt/resources/videos/realtime_eeg_analysis/v2.5.1/video_2.5.1.mp4. The final conference submission will include a more detailed analysis of the online performance of each module. ACKNOWLEDGMENTS Research reported in this publication was most recently supported by the National Science Foundation Partnership for Innovation award number IIP-1827565 and the Pennsylvania Commonwealth Universal Research Enhancement Program (PA CURE). Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the official views of any of these organizations. REFERENCES [1] A. Craik, Y. He, and J. L. Contreras-Vidal, “Deep learning for electroencephalogram (EEG) classification tasks: a review,” J. Neural Eng., vol. 16, no. 3, p. 031001, 2019. https://doi.org/10.1088/1741-2552/ab0ab5. [2] A. C. Bridi, T. Q. Louro, and R. C. L. Da Silva, “Clinical Alarms in intensive care: implications of alarm fatigue for the safety of patients,” Rev. Lat. Am. Enfermagem, vol. 22, no. 6, p. 1034, 2014. https://doi.org/10.1590/0104-1169.3488.2513. [3] M. Golmohammadi, V. Shah, I. Obeid, and J. Picone, “Deep Learning Approaches for Automatic Seizure Detection from Scalp Electroencephalograms,” in Signal Processing in Medicine and Biology: Emerging Trends in Research and Applications, 1st ed., I. Obeid, I. Selesnick, and J. Picone, Eds. New York, New York, USA: Springer, 2020, pp. 233–274. https://doi.org/10.1007/978-3-030-36844-9_8. [4] “CFM Olympic Brainz Monitor.” [Online]. Available: https://newborncare.natus.com/products-services/newborn-care-products/newborn-brain-injury/cfm-olympic-brainz-monitor. [Accessed: 17-Jul-2020]. [5] M. L. Scheuer, S. B. Wilson, A. Antony, G. Ghearing, A. Urban, and A. I. Bagic, “Seizure Detection: Interreader Agreement and Detection Algorithm Assessments Using a Large Dataset,” J. Clin. Neurophysiol., 2020. https://doi.org/10.1097/WNP.0000000000000709. [6] A. Harati, M. Golmohammadi, S. Lopez, I. Obeid, and J. Picone, “Improved EEG Event Classification Using Differential Energy,” in Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium, 2015, pp. 1–4. https://doi.org/10.1109/SPMB.2015.7405421. [7] V. Shah, C. Campbell, I. Obeid, and J. Picone, “Improved Spatio-Temporal Modeling in Automated Seizure Detection using Channel-Dependent Posteriors,” Neurocomputing, 2021. [8] W. Tatum, A. Husain, S. Benbadis, and P. Kaplan, Handbook of EEG Interpretation. New York City, New York, USA: Demos Medical Publishing, 2007. [9] D. P. Bovet and C. Marco, Understanding the Linux Kernel, 3rd ed. O’Reilly Media, Inc., 2005. https://www.oreilly.com/library/view/understanding-the-linux/0596005652/. [10] V. Shah et al., “The Temple University Hospital Seizure Detection Corpus,” Front. Neuroinform., vol. 12, pp. 1–6, 2018. https://doi.org/10.3389/fninf.2018.00083. [11] F. Pedregosa et al., “Scikit-learn: Machine Learning in Python,” J. Mach. Learn. Res., vol. 12, pp. 2825–2830, 2011. https://dl.acm.org/doi/10.5555/1953048.2078195. [12] J. Gotman, D. Flanagan, J. Zhang, and B. Rosenblatt, “Automatic seizure detection in the newborn: Methods and initial evaluation,” Electroencephalogr. Clin. Neurophysiol., vol. 103, no. 3, pp. 356–362, 1997. https://doi.org/10.1016/S0013-4694(97)00003-9.« less
3. A unified framework for packing deformable and non-deformable subcellular structures in crowded cryo-electron tomogram simulation

   https://doi.org/10.1186/s12859-020-03660-w  

   Liu, Sinuo ; Ban, Xiaojuan ; Zeng, Xiangrui ; Zhao, Fengnian ; Gao, Yuan ; Wu, Wenjie ; Zhang, Hongpan ; Chen, Feiyang ; Hall, Thomas ; Gao, Xin ; et al ( December 2020 , BMC Bioinformatics)

   Abstract Background Cryo-electron tomography is an important and powerful technique to explore the structure, abundance, and location of ultrastructure in a near-native state. It contains detailed information of all macromolecular complexes in a sample cell. However, due to the compact and crowded status, the missing edge effect, and low signal to noise ratio (SNR), it is extremely challenging to recover such information with existing image processing methods. Cryo-electron tomogram simulation is an effective solution to test and optimize the performance of the above image processing methods. The simulated images could be regarded as the labeled data which covers a wide range of macromolecular complexes and ultrastructure. To approximate the crowded cellular environment, it is very important to pack these heterogeneous structures as tightly as possible. Besides, simulating non-deformable and deformable components under a unified framework also need to be achieved. Result In this paper, we proposed a unified framework for simulating crowded cryo-electron tomogram images including non-deformable macromolecular complexes and deformable ultrastructures. A macromolecule was approximated using multiple balls with fixed relative positions to reduce the vacuum volume. A ultrastructure, such as membrane and filament, was approximated using multiple balls with flexible relative positions so that this structure could deformmore »under force field. In the experiment, 400 macromolecules of 20 representative types were packed into simulated cytoplasm by our framework, and numerical verification proved that our method has a smaller volume and higher compression ratio than the baseline single-ball model. We also packed filaments, membranes and macromolecules together, to obtain a simulated cryo-electron tomogram image with deformable structures. The simulated results are closer to the real Cryo-ET, making the analysis more difficult. The DOG particle picking method and the image segmentation method are tested on our simulation data, and the experimental results show that these methods still have much room for improvement. Conclusion The proposed multi-ball model can achieve more crowded packaging results and contains richer elements with different properties to obtain more realistic cryo-electron tomogram simulation. This enables users to simulate cryo-electron tomogram images with non-deformable macromolecular complexes and deformable ultrastructures under a unified framework. To illustrate the advantages of our framework in improving the compression ratio, we calculated the volume of simulated macromolecular under our multi-ball method and traditional single-ball method. We also performed the packing experiment of filaments and membranes to demonstrate the simulation ability of deformable structures. Our method can be used to do a benchmark by generating large labeled cryo-ET dataset and evaluating existing image processing methods. Since the content of the simulated cryo-ET is more complex and crowded compared with previous ones, it will pose a greater challenge to existing image processing methods.« less
4. Characterizing Student Identities in Engineering: Attitudinal Profiles of Engineering Majors

   Benson, L. ; Potvin, G. ; Kirn, A. ; Godwin, A. ; Doyle, J. ; Rohde, J.A. ; Verdín, D. ; Boone, H. ( June 2017 , ASEE annual conference & exposition)

   https://peer.asee.org/27950 This paper presents results of work completed on our project, Intersectionality of Non-normative Identities in the Cultures of Engineering (InIce). The overarching focus of this project is on how students who hold non-normative identities position themselves, grow through their education, and navigate the cultures of engineering they experience in college. Our goal is to investigate ways to engage students who hold non-normative identities to become more active and lifelong participants in engineering disciplines. Our work is proceeding in three phases: 1) Identify, through a quantitative instrument, the attitudinal profiles of normative and non-normative students in engineering; 2) Characterize students’ normative and non-normative identities through in-depth interviews and analysis of differences between students with normative and non-normative identities in engineering; and 3) Drawing from our findings, develop a workshop and set of courses to incorporate diversity topics into engineering programs to enhance the culture of engineering to be more responsive towards, and inclusive of, a diverse range of student identities. We have completed the first phase of the project in which we quantitatively measured and characterized student groups with normative and non-normative identities in engineering. Our definitions of normative and non-normative for this project are developed through Topological Data Analysismore »(TDA) of a set of multi-institution survey data (n = 2916). TDA allows identification of groups without imposing a priori hypotheses on how the attitudes of students may group together (nor how they may distinguish between demographic groups). This approach allows the underlying structure of the data to emerge rather than imposing pre-defined definitions of normative attitudes or identities. Our TDA results revealed one group that contains a relatively large number of students (the “normative” group) and a total of seven other distinct, but relatively populated, groups (the “non-normative” groups). We have compiled a summary of the most salient attitudinal constructs in terms of characterizing and distinguishing between all these groups including: motivation (value, goal orientation, future time perspective), engineering and physics identities (performance/competence and recognition beliefs for each), personality traits (neuroticism, extraversion, belongingness) and grit (consistency of interest). We are currently in Phase 2 of our study in which we are conducting a series of qualitative, longitudinal interviews with students selected from normative and non-normative groups to understand how they navigate their engineering experiences and define their educational trajectories over the first two years of college. This data will be deductively analyzed based on our existing attitudinal frameworks as well as inductively coded for emerging themes on how students feel belongingness within engineering culture. This project promises to move traditional measures of demographic data beyond socially constructed perceptions of others and allows for the representation of student diversity from the perspective of each participant. This more accurate reflection of diversity provides novel insight into the experiences of students who might otherwise be ignored or unjustifiably lumped in with other students with whom they share some demographic indicator and how residing at the intersection of multiple measures of diversity can influence students’ experiences in engineering culture.« less
5. Student Subtyping via EM-Inverse Reinforcement Learning.

   Yang, X. ; Zhou, G. ; Taub, M. ; Azevedo, R. ; & Chi, M. ( January 2020 , In Proceedings of the 13th International Conference on Educational Data Mining (EDM) 2020.)

   Abstract: In the learning sciences, heterogeneity among students usually leads to different learning strategies or patterns and may require different types of instructional interventions. Therefore, it is important to investigate student subtyping, which is to group students into subtypes based on their learning patterns. Subtyping from complex student learning processes is often challenging because of the information heterogeneity and temporal dynamics. Various inverse reinforcement learning (IRL) algorithms have been successfully employed in many domains for inducing policies from the trajectories and recently has been applied for analyzing students’ temporal logs to identify their domain knowledge patterns. IRL was originally designed to model the data by assuming that all trajectories have a single pattern or strategy. Due to the heterogeneity among students, their strategies can vary greatly and the design of traditional IRL may lead to suboptimal performance. In this paper, we applied a novel expectation-maximization IRL (EM-IRL) to extract heterogeneous learning strategies from sequential data collected from three simulation environments and real-world longitudinal students’ logs. Experiments on simulation environments showed that EM-IRL can successfully identify different policies from the heterogeneous sequences with different strategies. Furthermore, experimental results from our educational dataset showed that EM-IRL can be used to obtain differentmore »student subtypes: a “learning-oriented” subtype who learned the material as much as possible regardless of the time in that they spent significantly more time than the other two subtypes and learned significantly; an“efficient-oriented”subtype who learned efficiently in that they not only learned significantly but also spent less time than the first subtype; a “no learning” subtype who spent less amount of time than first subtype and failed to learn.« less