Jason T. L. Wang

Yasser Abduallah, Vania K. Jordanova, Hao Liu et al.

Solar energetic particles (SEPs) are an essential source of space radiation, which are hazards for humans in space, spacecraft, and technology in general. In this paper we propose a deep learning method, specifically a bidirectional long short-term memory (biLSTM) network, to predict if an active region (AR) would produce an SEP event given that (i) the AR will produce an M- or X-class flare and a coronal mass ejection (CME) associated with the flare, or (ii) the AR will produce an M- or X-class flare regardless of whether or not the flare is associated with a CME. The data samples used in this study are collected from the Geostationary Operational Environmental Satellite's X-ray flare catalogs provided by the National Centers for Environmental Information. We select M- and X-class flares with identified ARs in the catalogs for the period between 2010 and 2021, and find the associations of flares, CMEs and SEPs in the Space Weather Database of Notifications, Knowledge, Information during the same period. Each data sample contains physical parameters collected from the Helioseismic and Magnetic Imager on board the Solar Dynamics Observatory. Experimental results based on different performance metrics demonstrate that the proposed biLSTM network is better than related machine learning algorithms for the two SEP prediction tasks studied here. We also discuss extensions of our approach for probabilistic forecasting and calibration with empirical evaluation.

Haodi Jiang, Qin Li, Yan Xu et al.

Obtaining high-quality magnetic and velocity fields through Stokes inversion is crucial in solar physics. In this paper, we present a new deep learning method, named Stacked Deep Neural Networks (SDNN), for inferring line-of-sight (LOS) velocities and Doppler widths from Stokes profiles collected by the Near InfraRed Imaging Spectropolarimeter (NIRIS) on the 1.6 m Goode Solar Telescope (GST) at the Big Bear Solar Observatory (BBSO). The training data of SDNN is prepared by a Milne-Eddington (ME) inversion code used by BBSO. We quantitatively assess SDNN, comparing its inversion results with those obtained by the ME inversion code and related machine learning (ML) algorithms such as multiple support vector regression, multilayer perceptrons and a pixel-level convolutional neural network. Major findings from our experimental study are summarized as follows. First, the SDNN-inferred LOS velocities are highly correlated to the ME-calculated ones with the Pearson product-moment correlation coefficient being close to 0.9 on average. Second, SDNN is faster, while producing smoother and cleaner LOS velocity and Doppler width maps, than the ME inversion code. Third, the maps produced by SDNN are closer to ME's maps than those from the related ML algorithms, demonstrating the better learning capability of SDNN than the ML algorithms. Finally, comparison between the inversion results of ME and SDNN based on GST/NIRIS and those from the Helioseismic and Magnetic Imager on board the Solar Dynamics Observatory in flare-prolific active region NOAA 12673 is presented. We also discuss extensions of SDNN for inferring vector magnetic fields with empirical evaluation.

Haodi Jiang, Qin Li, Zhihang Hu et al.

Solar activity is usually caused by the evolution of solar magnetic fields. Magnetic field parameters derived from photospheric vector magnetograms of solar active regions have been used to analyze and forecast eruptive events such as solar flares and coronal mass ejections. Unfortunately, the most recent solar cycle 24 was relatively weak with few large flares, though it is the only solar cycle in which consistent time-sequence vector magnetograms have been available through the Helioseismic and Magnetic Imager (HMI) on board the Solar Dynamics Observatory (SDO) since its launch in 2010. In this paper, we look into another major instrument, namely the Michelson Doppler Imager (MDI) on board the Solar and Heliospheric Observatory (SOHO) from 1996 to 2010. The data archive of SOHO/MDI covers more active solar cycle 23 with many large flares. However, SOHO/MDI data only has line-of-sight (LOS) magnetograms. We propose a new deep learning method, named MagNet, to learn from combined LOS magnetograms, Bx and By taken by SDO/HMI along with H-alpha observations collected by the Big Bear Solar Observatory (BBSO), and to generate vector components Bx' and By', which would form vector magnetograms with observed LOS data. In this way, we can expand the availability of vector magnetograms to the period from 1996 to present. Experimental results demonstrate the good performance of the proposed method. To our knowledge, this is the first time that deep learning has been used to generate photospheric vector magnetograms of solar active regions for SOHO/MDI using SDO/HMI and H-alpha data.

Yasser Abduallah, Jason T. L. Wang, Prianka Bose et al.

The disturbance storm time (Dst) index is an important and useful measurement in space weather research. It has been used to characterize the size and intensity of a geomagnetic storm. A negative Dst value means that the Earth's magnetic field is weakened, which happens during storms. In this paper, we present a novel deep learning method, called the Dst Transformer, to perform short-term, 1-6 hour ahead, forecasting of the Dst index based on the solar wind parameters provided by the NASA Space Science Data Coordinated Archive. The Dst Transformer combines a multi-head attention layer with Bayesian inference, which is capable of quantifying both aleatoric uncertainty and epistemic uncertainty when making Dst predictions. Experimental results show that the proposed Dst Transformer outperforms related machine learning methods in terms of the root mean square error and R-squared. Furthermore, the Dst Transformer can produce both data and model uncertainty quantification results, which can not be done by the existing methods. To our knowledge, this is the first time that Bayesian deep learning has been used for Dst index forecasting.

Khalid A. Alobaid, Jason T. L. Wang

The Sun constantly releases radiation and plasma into the heliosphere. Sporadically, the Sun launches solar eruptions such as flares and coronal mass ejections (CMEs). CMEs carry away a huge amount of mass and magnetic flux with them. An Earth-directed CME can cause serious consequences to the human system. It can destroy power grids/pipelines, satellites, and communications. Therefore, accurately monitoring and predicting CMEs is important to minimize damages to the human system. In this study we propose an ensemble learning approach, named CMETNet, for predicting the arrival time of CMEs from the Sun to the Earth. We collect and integrate eruptive events from two solar cycles, #23 and #24, from 1996 to 2021 with a total of 363 geoeffective CMEs. The data used for making predictions include CME features, solar wind parameters and CME images obtained from the SOHO/LASCO C2 coronagraph. Our ensemble learning framework comprises regression algorithms for numerical data analysis and a convolutional neural network for image processing. Experimental results show that CMETNet performs better than existing machine learning methods reported in the literature, with a Pearson product-moment correlation coefficient of 0.83 and a mean absolute error of 9.75 hours.

Chunhui Xu, Jason T. L. Wang, Haimin Wang et al.

Image super-resolution has been an important subject in image processing and recognition. Here, we present an attention-aided convolutional neural network (CNN) for solar image super-resolution. Our method, named SolarCNN, aims to enhance the quality of line-of-sight (LOS) magnetograms of solar active regions (ARs) collected by the Michelson Doppler Imager (MDI) on board the Solar and Heliospheric Observatory (SOHO). The ground-truth labels used for training SolarCNN are the LOS magnetograms collected by the Helioseismic and Magnetic Imager (HMI) on board the Solar Dynamics Observatory (SDO). Solar ARs consist of strong magnetic fields in which magnetic energy can suddenly be released to produce extreme space weather events, such as solar flares, coronal mass ejections, and solar energetic particles. SOHO/MDI covers Solar Cycle 23, which is stronger with more eruptive events than Cycle 24. Enhanced SOHO/MDI magnetograms allow for better understanding and forecasting of violent events of space weather. Experimental results show that SolarCNN improves the quality of SOHO/MDI magnetograms in terms of the structural similarity index measure (SSIM), Pearson's correlation coefficient (PCC), and the peak signal-to-noise ratio (PSNR).

Yasser Abduallah, Khalid A. Alobaid, Jason T. L. Wang et al.

We propose a novel deep learning framework, named SYMHnet, which employs a graph neural network and a bidirectional long short-term memory network to cooperatively learn patterns from solar wind and interplanetary magnetic field parameters for short-term forecasts of the SYM-H index based on 1-minute and 5-minute resolution data. SYMHnet takes, as input, the time series of the parameters' values provided by NASA's Space Science Data Coordinated Archive and predicts, as output, the SYM-H index value at time point t + w hours for a given time point t where w is 1 or 2. By incorporating Bayesian inference into the learning framework, SYMHnet can quantify both aleatoric (data) uncertainty and epistemic (model) uncertainty when predicting future SYM-H indices. Experimental results show that SYMHnet works well at quiet time and storm time, for both 1-minute and 5-minute resolution data. The results also show that SYMHnet generally performs better than related machine learning methods. For example, SYMHnet achieves a forecast skill score (FSS) of 0.343 compared to the FSS of 0.074 of a recent gradient boosting machine (GBM) method when predicting SYM-H indices (1 hour in advance) in a large storm (SYM-H = -393 nT) using 5-minute resolution data. When predicting the SYM-H indices (2 hours in advance) in the large storm, SYMHnet achieves an FSS of 0.553 compared to the FSS of 0.087 of the GBM method. In addition, SYMHnet can provide results for both data and model uncertainty quantification, whereas the related methods cannot.

Khalid A. Alobaid, Yasser Abduallah, Jason T. L. Wang et al.

Coronal mass ejections (CMEs) are massive solar eruptions, which have a significant impact on Earth. In this paper, we propose a new method, called DeepCME, to estimate two properties of CMEs, namely, CME mass and kinetic energy. Being able to estimate these properties helps better understand CME dynamics. Our study is based on the CME catalog maintained at the Coordinated Data Analysis Workshops (CDAW) Data Center, which contains all CMEs manually identified since 1996 using the Large Angle and Spectrometric Coronagraph (LASCO) on board the Solar and Heliospheric Observatory (SOHO). We use LASCO C2 data in the period between January 1996 and December 2020 to train, validate and test DeepCME through 10-fold cross validation. The DeepCME method is a fusion of three deep learning models, including ResNet, InceptionNet, and InceptionResNet. Our fusion model extracts features from LASCO C2 images, effectively combining the learning capabilities of the three component models to jointly estimate the mass and kinetic energy of CMEs. Experimental results show that the fusion model yields a mean relative error (MRE) of 0.013 (0.009, respectively) compared to the MRE of 0.019 (0.017, respectively) of the best component model InceptionResNet (InceptionNet, respectively) in estimating the CME mass (kinetic energy, respectively). To our knowledge, this is the first time that deep learning has been used for CME mass and kinetic energy estimations.

Haodi Jiang, Qin Li, Jason T. L. Wang et al.

Solar extreme ultraviolet (EUV) irradiance plays a crucial role in heating the Earth's ionosphere, thermosphere, and mesosphere, affecting atmospheric dynamics over varying time scales. Although significant effort has been spent studying short-term EUV variations from solar transient events, there is little work to explore the long-term evolution of the EUV flux over multiple solar cycles. Continuous EUV flux measurements have only been available since 1995, leaving significant gaps in earlier data. In this study, we propose a Bayesian deep learning model, named SEMNet, to fill the gaps. We validate our approach by applying SEMNet to construct SOHO/SEM EUV flux measurements in the period between 1998 and 2014 using CaII K images from the Precision Solar Photometric Telescope. We then extend SEMNet through transfer learning to reconstruct solar EUV irradiance in the period between 1950 and 1960 using CaII K images from the Kodaikanal Solar Observatory. Experimental results show that SEMNet provides reliable predictions along with uncertainty bounds, demonstrating the feasibility of CaII K images as a robust proxy for long-term EUV fluxes. These findings contribute to a better understanding of solar influences on Earth's climate over extended periods.

Jialiang Li, Vasyl Yurchyshyn, Jason T. L. Wang et al.

We present a novel deep generative model, named GenMDI, to improve the temporal resolution of line-of-sight (LOS) magnetograms of solar active regions (ARs) collected by the Michelson Doppler Imager (MDI) on board the Solar and Heliospheric Observatory (SOHO). Unlike previous studies that focus primarily on spatial super-resolution of MDI magnetograms, our approach can perform temporal super-resolution, which generates and inserts synthetic data between observed MDI magnetograms, thus providing finer temporal structure and enhanced details in the LOS data. The GenMDI model employs a conditional diffusion process, which synthesizes images by considering both preceding and subsequent magnetograms, ensuring that the generated images are not only of high-quality, but also temporally coherent with the surrounding data. Experimental results show that the GenMDI model performs better than the traditional linear interpolation method, especially in ARs with dynamic evolution in magnetic fields.

Hongyang Zhang, Ju Jing, Jason T. L. Wang et al.

We present a transformer model, named DeepHalo, to predict the occurrence of halo coronal mass ejections (CMEs). Our model takes as input an active region (AR) and a profile, where the profile contains a time series of data samples in the AR that are collected 24 hours before the beginning of a day, and predicts whether the AR would produce a halo CME during that day. Each data sample contains physical parameters, or features, derived from photospheric vector magnetic field data taken by the Helioseismic and Magnetic Imager (HMI) on board the Solar Dynamics Observatory (SDO). We survey and match CME events in the Space Weather Database Of Notification, Knowledge, Information (DONKI) and Large Angle and Spectrometric Coronagraph (LASCO) CME Catalog, and compile a list of CMEs including halo CMEs and non-halo CMEs associated with ARs in the period between November 2010 and August 2023. We use the information gathered above to build the labels (positive versus negative) of the data samples and profiles at hand, where the labels are needed for machine learning. Experimental results show that DeepHalo with a true skill statistics (TSS) score of 0.907 outperforms a closely related long short-term memory network with a TSS score of 0.821. To our knowledge, this is the first time that the transformer model has been used for halo CME prediction.

Khalid A. Alobaid, Jason T. L. Wang, Haimin Wang et al.

The application of machine learning to the study of coronal mass ejections (CMEs) and their impacts on Earth has seen significant growth recently. Understanding and forecasting CME geoeffectiveness is crucial for protecting infrastructure in space and ensuring the resilience of technological systems on Earth. Here we present GeoCME, a deep-learning framework designed to predict, deterministically or probabilistically, whether a CME event that arrives at Earth will cause a geomagnetic storm. A geomagnetic storm is defined as a disturbance of the Earth's magnetosphere during which the minimum Dst index value is less than -50 nT. GeoCME is trained on observations from the instruments including LASCO C2, EIT and MDI on board the Solar and Heliospheric Observatory (SOHO), focusing on a dataset that includes 136 halo/partial halo CMEs in Solar Cycle 23. Using ensemble and transfer learning techniques, GeoCME is capable of extracting features hidden in the SOHO observations and making predictions based on the learned features. Our experimental results demonstrate the good performance of GeoCME, achieving a Matthew's correlation coefficient of 0.807 and a true skill statistics score of 0.714 when the tool is used as a deterministic prediction model. When the tool is used as a probabilistic forecasting model, it achieves a Brier score of 0.094 and a Brier skill score of 0.493. These results are promising, showing that the proposed GeoCME can help enhance our understanding of CME-triggered solar-terrestrial interactions.

Yasser Abduallah, Jason T. L. Wang, Yucong Shen et al.

The Earth's primary source of energy is the radiant energy generated by the Sun, which is referred to as solar irradiance, or total solar irradiance (TSI) when all of the radiation is measured. A minor change in the solar irradiance can have a significant impact on the Earth's climate and atmosphere. As a result, studying and measuring solar irradiance is crucial in understanding climate changes and solar variability. Several methods have been developed to reconstruct total solar irradiance for long and short periods of time; however, they are physics-based and rely on the availability of data, which does not go beyond 9,000 years. In this paper we propose a new method, called TSInet, to reconstruct total solar irradiance by deep learning for short and long periods of time that span beyond the physical models' data availability. On the data that are available, our method agrees well with the state-of-the-art physics-based reconstruction models. To our knowledge, this is the first time that deep learning has been used to reconstruct total solar irradiance for more than 9,000 years.

Hao Liu, Yan Xu, Jiasheng Wang et al.

We propose a new machine learning approach to Stokes inversion based on a convolutional neural network (CNN) and the Milne-Eddington (ME) method. The Stokes measurements used in this study were taken by the Near InfraRed Imaging Spectropolarimeter (NIRIS) on the 1.6 m Goode Solar Telescope (GST) at the Big Bear Solar Observatory. By learning the latent patterns in the training data prepared by the physics-based ME tool, the proposed CNN method is able to infer vector magnetic fields from the Stokes profiles of GST/NIRIS. Experimental results show that our CNN method produces smoother and cleaner magnetic maps than the widely used ME method. Furthermore, the CNN method is 4~6 times faster than the ME method, and is able to produce vector magnetic fields in near real-time, which is essential to space weather forecasting. Specifically, it takes ~50 seconds for the CNN method to process an image of 720 x 720 pixels comprising Stokes profiles of GST/NIRIS. Finally, the CNN-inferred results are highly correlated to the ME-calculated results and are closer to the ME's results with the Pearson product-moment correlation coefficient (PPMCC) being closer to 1 on average than those from other machine learning algorithms such as multiple support vector regression and multilayer perceptrons (MLP). In particular, the CNN method outperforms the current best machine learning method (MLP) by 2.6% on average in PPMCC according to our experimental study. Thus, the proposed physics-assisted deep learning-based CNN tool can be considered as an alternative, efficient method for Stokes inversion for high resolution polarimetric observations obtained by GST/NIRIS.

Hao Liu, Chang Liu, Jason T. L. Wang et al.

We present two recurrent neural networks (RNNs), one based on gated recurrent units and the other based on long short-term memory, for predicting whether an active region (AR) that produces an M- or X-class flare will also produce a coronal mass ejection (CME). We model data samples in an AR as time series and use the RNNs to capture temporal information of the data samples. Each data sample has 18 physical parameters, or features, derived from photospheric vector magnetic field data taken by the Helioseismic and Magnetic Imager (HMI) on board the Solar Dynamics Observatory (SDO). We survey M- and X-class flares that occurred from 2010 May to 2019 May using the Geostationary Operational Environmental Satellite's X-ray flare catalogs provided by the National Centers for Environmental Information (NCEI), and select those flares with identified ARs in the NCEI catalogs. In addition, we extract the associations of flares and CMEs from the Space Weather Database Of Notifications, Knowledge, Information (DONKI). We use the information gathered above to build the labels (positive versus negative) of the data samples at hand. Experimental results demonstrate the superiority of our RNNs over closely related machine learning methods in predicting the labels of the data samples. We also discuss an extension of our approach to predict a probabilistic estimate of how likely an M- or X-class flare will initiate a CME, with good performance results. To our knowledge this is the first time that RNNs have been used for CME prediction.

Hao Liu, Chang Liu, Jason T. L. Wang et al.

We present a long short-term memory (LSTM) network for predicting whether an active region (AR) would produce a gamma-class flare within the next 24 hours. We consider three gamma classes, namely >=M5.0 class, >=M class, and >=C class, and build three LSTM models separately, each corresponding to a gamma class. Each LSTM model is used to make predictions of its corresponding gamma-class flares. The essence of our approach is to model data samples in an AR as time series and use LSTMs to capture temporal information of the data samples. Each data sample has 40 features including 25 magnetic parameters obtained from the Space-weather HMI Active Region Patches (SHARP) and related data products as well as 15 flare history parameters. We survey the flare events that occurred from 2010 May to 2018 May, using the GOES X-ray flare catalogs provided by the National Centers for Environmental Information (NCEI), and select flares with identified ARs in the NCEI flare catalogs. These flare events are used to build the labels (positive vs. negative) of the data samples. Experimental results show that (i) using only 14-22 most important features including both flare history and magnetic parameters can achieve better performance than using all the 40 features together; (ii) our LSTM network outperforms related machine learning methods in predicting the labels of the data samples. To our knowledge, this is the first time that LSTMs have been used for solar flare prediction.

Ling Zhong, Jason T. L. Wang

MicroRNAs (miRNAs) are non-coding RNAs with approximately 22 nucleotides (nt) that are derived from precursor molecules. These precursor molecules or pre-miRNAs often fold into stem-loop hairpin structures. However, a large number of sequences with pre-miRNA-like hairpins can be found in genomes. It is a challenge to distinguish the real pre-miRNAs from other hairpin sequences with similar stem-loops (referred to as pseudo pre-miRNAs). Several computational methods have been developed to tackle this challenge. In this paper we propose a new method, called MirID, for identifying and classifying microRNA precursors. We collect 74 features from the sequences and secondary structures of pre-miRNAs; some of these features are taken from our previous studies on non-coding RNA prediction while others were suggested in the literature. We develop a combinatorial feature mining algorithm to identify suitable feature sets. These feature sets are then used to train support vector machines to obtain classification models, based on which classifier ensemble is constructed. Finally we use an AdaBoost algorithm to further enhance the accuracy of the classifier ensemble. Experimental results on a variety of species demonstrate the good performance of the proposed method, and its superiority over existing tools.

Nihir Patel, Jason T. L. Wang

Use of computational methods to predict gene regulatory networks (GRNs) from gene expression data is a challenging task. Many studies have been conducted using unsupervised methods to fulfill the task; however, such methods usually yield low prediction accuracies due to the lack of training data. In this article, we propose semi-supervised methods for GRN prediction by utilizing two machine learning algorithms, namely support vector machines (SVM) and random forests (RF). The semi-supervised methods make use of unlabeled data for training. We investigate inductive and transductive learning approaches, both of which adopt an iterative procedure to obtain reliable negative training data from the unlabeled data. We then apply our semi-supervised methods to gene expression data of Escherichia coli and Saccharomyces cerevisiae, and evaluate the performance of our methods using the expression data. Our analysis indicated that the transductive learning approach outperformed the inductive learning approach for both organisms. However, there was no conclusive difference identified in the performance of SVM and RF. Experimental results also showed that the proposed semi-supervised methods performed better than existing supervised methods for both organisms.