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Objective: Magnetic Resonance Spectroscopy (MRS) is an important technique for biomedical detection. However, it is challenging to accurately quantify metabolites with proton MRS due to serious overlaps of metabolite signals, imperfections because of non-ideal acquisition conditions, and interference with strong background signals mainly from macromolecules. The most popular method, LCModel, adopts complicated non-linear least square to quantify metabolites and addresses these problems by designing empirical priors such as basis-sets, imperfection factors. However, when the signal-to-noise ratio of MRS signal is low, the solution may have large deviation. Methods: Linear Least Squares (LLS) is integrated with deep learning to reduce the complexity of solving this overall quantification. First, a neural network is designed to explicitly predict the imperfection factors and the overall signal from macromolecules. Then, metabolite quantification is solved analytically with the introduced LLS. In our Quantification Network (QNet), LLS takes part in the backpropagation of network training, which allows the feedback of the quantification error into metabolite spectrum estimation. This scheme greatly improves the generalization to metabolite concentrations unseen for training compared to the end-to-end deep learning method. Results: Experiments show that compared with LCModel, the proposed QNet, has smaller quantification errors for simulated data, and presents more stable quantification for 20 healthy in vivo data at a wide range of signal-to-noise ratio. QNet also outperforms other end-to-end deep learning methods. Conclusion: This study provides an intelligent, reliable and robust MRS quantification. Significance: QNet is the first LLS quantification aided by deep learning.

Data-driven design and innovation is a process to reuse and provide valuable and useful information. However, existing semantic networks for design innovation is built on data source restricted to technological and scientific information. Besides, existing studies build the edges of a semantic network only on either statistical or semantic relationships, which is less likely to make full use of the benefits from both types of relationships and discover implicit knowledge for design innovation. Therefore, we constructed WikiLink, a semantic network based on Wikipedia. Combined weight which fuses both the statistic and semantic weights between concepts is introduced in WikiLink, and four algorithms are developed for inspiring new ideas. Evaluation experiments are undertaken and results show that the network is characterised by high coverage of terms, relationships and disciplines, which proves the network's effectiveness and usefulness. Then a demonstration and case study results indicate that WikiLink can serve as an idea generation tool for innovation in conceptual design. The source code of WikiLink and the backend data are provided open-source for more users to explore and build on., Comment: 20 pages, 11 figures

In this paper, we study the "stability" of machine learning (ML) models within the context of larger, complex NLP systems with continuous training data updates. For this study, we propose a methodology for the assessment of model stability (which we refer to as jitter under various experimental conditions. We find that model design choices, including network architecture and input representation, have a critical impact on stability through experiments on four text classification tasks and two sequence labeling tasks. In classification tasks, non-RNN-based models are observed to be more stable than RNN-based ones, while the encoder-decoder model is less stable in sequence labeling tasks. Moreover, input representations based on pre-trained fastText embeddings contribute to more stability than other choices. We also show that two learning strategies -- ensemble models and incremental training -- have a significant influence on stability. We recommend ML model designers account for trade-offs in accuracy and jitter when making modeling choices.

Magnetic Resonance Spectroscopy (MRS) is a noninvasive tool to reveal metabolic information. One challenge of 1H-MRS is the low Signal-Noise Ratio (SNR). To improve the SNR, a typical approach is to perform Signal Averaging (SA) with M repeated samples. The data acquisition time, however, is increased by M times accordingly, and a complete clinical MRS scan takes approximately 10 minutes at a common setting M=128. Recently, deep learning has been introduced to improve the SNR but most of them use the simulated data as the training set. This may hinder the MRS applications since some potential differences, such as acquisition system imperfections, and physiological and psychologic conditions may exist between the simulated and in vivo data. Here, we proposed a new scheme that purely used the repeated samples of realistic data. A deep learning model, Refusion Long Short-Term Memory (ReLSTM), was designed to learn the mapping from the low SNR time-domain data (24 SA) to the high SNR one (128 SA). Experiments on the in vivo brain spectra of 7 healthy subjects, 2 brain tumor patients and 1 cerebral infarction patient showed that only using 20% repeated samples, the denoised spectra by ReLSTM could provide comparable estimated concentrations of metabolites to 128 SA. Compared with the state-of-the-art low-rank denoising method, the ReLSTM achieved the lower relative error and the Cram\'er-Rao lower bounds in quantifying some important biomarkers. In summary, ReLSTM can perform high-fidelity denoising of the spectra under fast acquisition (24 SA), which would be valuable to MRS clinical studies.

Nuclear Magnetic Resonance (NMR) spectroscopy is an important analytical tool in chemistry, biology, and life science, but it suffers from relatively low sensitivity and long acquisition time. Thus, improving the apparent signal-to-noise ratio and accelerating data acquisition become indispensable. In this review, we summarize the recent progress on low rank Hankel matrix and tensor methods, that exploit the exponential property of free induction decay signals, to enable effective denoising and spectra reconstruction. We also outline future developments that are likely to make NMR spectroscopy a far more powerful technique., Comment: 13 pages, 21 figures, 9 tables

RubyStar is a dialog system designed to create "human-like" conversation by combining different response generation strategies. RubyStar conducts a non-task-oriented conversation on general topics by using an ensemble of rule-based, retrieval-based and generative methods. Topic detection, engagement monitoring, and context tracking are used for managing interaction. Predictable elements of conversation, such as the bot's backstory and simple question answering are handled by separate modules. We describe a rating scheme we developed for evaluating response generation. We find that character-level RNN is an effective generation model for general responses, with proper parameter settings; however other kinds of conversation topics might benefit from using other models.