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1. Extratropical Cyclone Response to Projected Reductions in Snow Extent over the Great Plains

   https://doi.org/10.3390/atmos14050783  

   Clare, Ryan M. ; Desai, Ankur R. ; Martin, Jonathan E. ; Notaro, Michael ; Vavrus, Stephen J. ( May 2023 , Atmosphere)

   Extratropical cyclones develop in regions of enhanced baroclinicity and progress along climatological storm tracks. Numerous studies have noted an influence of terrestrial snow cover on atmospheric baroclinicity. However, these studies have less typically examined the role that continental snow cover extent and changes anticipated with anthropogenic climate change have on cyclones’ intensities, trajectories, and precipitation characteristics. Here, we examined how projected future poleward shifts in North American snow extent influence extratropical cyclones. We imposed 10th, 50th, and 90th percentile values of snow retreat between the late 20th and 21st centuries as projected by 14 Coupled Model Intercomparison Project Phase Five (CMIP5) models to alter snow extent underlying 15 historical cold-season cyclones that tracked over the North American Great Plains and were faithfully reproduced in control model cases, providing a comprehensive set of model runs to evaluate hypotheses. Simulations by the Advanced Research version of the Weather Research and Forecast Model (WRF-ARW) were initialized at four days prior to cyclogenesis. Cyclone trajectories moved on average poleward (μ = 27 +/− σ = 17 km) in response to reduced snow extent while the maximum sea-level pressure deepened (μ = −0.48 +/− σ = 0.8 hPa) with greater snow removed. A significant linear correlation was observed between the area of snow removed and mean trajectory deviation (r2 = 0.23), especially in mid-winter (r2 = 0.59), as well as a similar relationship for maximum change in sea-level pressure (r2 = 0.17). Across all simulations, 82% of the perturbed simulation cyclones decreased in average central sea-level pressure (SLP) compared to the corresponding control simulation. Near-surface wind speed increased, as did precipitation, in 86% of cases with a preferred phase change from the solid to liquid state due to warming, although the trends did not correlate with the snow retreat magnitude. Our results, consistent with prior studies noting some role for the enhanced baroclinity of the snow line in modulating storm track and intensity, provide a benchmark to evaluate future snow cover retreat impacts on mid-latitude weather systems. 

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2. Climatological Changes in the Extratropical Transition of Tropical Cyclones in High-Resolution Global Simulations

   https://doi.org/10.1175/JCLI-D-19-0259.1  

   Michaelis, Allison C. ; Lackmann, Gary M. ( December 2019 , Journal of Climate)

   Tropical cyclones (TCs) undergoing extratropical transition (ET) can develop into intense cyclonic systems accompanied by high-impact weather in areas far removed from the original TC. This study presents an analysis of multiseasonal global simulations representative of present-day and projected future climates using the Model for Prediction Across Scales–Atmosphere (MPAS-A), with high resolution (15-km grid) throughout the Northern Hemisphere. TCs are tracked as minima in sea level pressure (SLP) accompanied by a warm core, and TC tracks are extended into the extratropical phase based on local minima in SLP and use of a cyclone phase space method. The present-day simulations adequately represent observed ET characteristics such as frequency, location, and seasonal cycles throughout the Northern Hemisphere. The most significant changes in future ET events occur in the North Atlantic (NATL) basin. Here, a more favorable background environment, a shift toward stronger TC warm cores in the lower troposphere, and a significant poleward shift in TC location lead to a ~40% increase in the number of NATL ET events and a ~6% increase in the fraction of TCs undergoing ET. This equates to approximately 1–2 additional ET events per year in this region. In the future simulations, ET in the NATL occurs markedly farther north by ~4°–5°N, and the resultant extratropical cyclones are stronger by ~6 hPa. These changes hold potentially important implications for areas directly affected by ET events, such as eastern North America, as well as for regions indirectly impacted by downstream effects, including western Europe.

    

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3. Changing available energy for extratropical cyclones and associated convection in Northern Hemisphere summer

   https://doi.org/10.1073/pnas.1812312116  

   Gertler, Charles G. ; O’Gorman, Paul A. ( February 2019 , Proceedings of the National Academy of Sciences)

   The circulation of the Northern Hemisphere extratropical troposphere has changed over recent decades, with marked decreases in extratropical cyclone activity and eddy kinetic energy (EKE) in summer and increases in the fraction of precipitation that is convective in all seasons. Decreasing EKE in summer is partly explained by a weakening meridional temperature gradient, but changes in vertical temperature gradients and increasing moisture also affect the mean available potential energy (MAPE), which is the energetic reservoir from which extratropical cyclones draw. Furthermore, the relation of changes in mean thermal structure and moisture to changes in convection associated with extratropical cyclones is poorly understood. Here we calculate trends in MAPE for the Northern extratropics in summer over the years 1979–2017, and we decompose MAPE into both convective and nonconvective components. Nonconvective MAPE decreased over this period, consistent with decreases in EKE and extratropical cyclone activity, but convective MAPE increased, implying an increase in the energy available to convection. Calculations with idealized atmospheres indicate that nonconvective and convective MAPE both increase with increasing mean surface temperature and decrease with decreasing meridional surface temperature gradient, but convective MAPE is relatively more sensitive to the increase in mean surface temperature. These results connect changes in the atmospheric mean state with changes in both large-scale and convective circulations, and they suggest that extratropical cyclones can weaken even as their associated convection becomes more energetic.

    

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4. Tropical Cyclones in the NASA GEOS-5 Model and MERRA-2 Reanalysis

   Aarons, Zoe ; Camargo, Suzana J. ; Strong, Jeffrey D. ; Murakami, Hiroyuki ( January 2019 , American Meteorological Society Annual Meeting, Abstract S251)

   Studies of projected changes in tropical cyclones under anthropogenic climate change, as well as their modulation by internal climate modes, make use of global climate models. To this end, tropical cyclones can be tracked in the output of higher resolution models. Using climate models to make future projections of tropical cyclones relies upon having a baseline of the characteristics of model storms under the current climate. This study focuses on two high-resolution datasets – the NASA GEOS-5 Model (Goddard Earth Observing System Model, Version 5) and the MERRA-2 Reanalysis (Modern-Era Retrospective analysis for Research and Applications, Version 2). Both of these datasets were created using exactly the same atmospheric model during the same period. However, while GEOS-5 is a free-running atmospheric model forced only with sea surface temperature, MERRA-2 is a reanalysis product, i.e. the model assimilates data from a large variety of data sources. Thus, by comparing tropical cyclones tracked in these datasets to each other and global best track datasets in the period 1980-1999, this project aims to evaluate 1) the sensitivity of this model to how it is forced and 2) how well the storms tracked in GEOS-5 and MERRA-2 replicate observed tropical cyclones’ characteristics. We used two different tracking schemes on both datasets and found no significant difference in the performance of the model and the reanalysis in simulating tropical cyclones. Standard diagnostics for tropical cyclones, such as the mean number, intensity distribution, as well as their interannual variability are very similar in the free-running model and the reanalysis. Both GEOS-5 and MERRA-2 show a bias towards weaker tropical cyclones than observed and GEOS-5 has storms that occur closer to the equator than in the observed record. Neither GEOS-5 nor MERRA-2 accurately reproduce tropical cyclone modulation by ENSO. Additionally, comparison of MERRA-2 to other reanalysis datasets shows that MERRA-2 on average generates fewer total but also more intense storms than the European Centre for Medium-Range Weather Forecasts Interim Reanalysis (ERA-Interim) and Japanese 55-Year Reanalysis (JRA-55). Further research must be performed to understand why this data assimilation is failing to provide a positive impact on the tropical cyclone simulation in this model. 

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5. 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 EEG 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. 

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