MOTIVATION: Complex tissues are dynamic ecosystems consisting of molecularly distinct yet interacting cell types. Computational deconvolution aims to dissect bulk tissue data into cell type compositions and cell-specific expressions. With few exceptions, most existing deconvolution tools exploit supervised approaches requiring various types of references that may be unreliable or even unavailable for specific tissue microenvironments. RESULTS: We previously developed a fully unsupervised deconvolution method-Convex Analysis of Mixtures (CAM), that enables estimation of cell type composition and expression from bulk tissues. We now introduce CAM3.0 tool that improves this framework with three new and highly efficient algorithms, namely, radius-fixed clustering to identify reliable markers, linear programming to detect an initial scatter simplex, and a smart floating search for the optimum latent variable model. The comparative experimental results obtained from both realistic simulations and case studies show that the CAM3.0 tool can help biologists more accurately identify known or novel cell markers, determine cell proportions, and estimate cell-specific expressions, complementing the existing tools particularly when study- or datatype-specific references are unreliable or unavailable. AVAILABILITY AND IMPLEMENTATION: The open-source R Scripts of CAM3.0 is freely available at https://github.com/ChiungTingWu/CAM3/(https://github.com/Bioconductor/Contributions/issues/3205). A user's guide and a vignette are provided.

There exists an ongoing need to improve the validity and accuracy of computational fluid dynamics (CFD) simulations of turbulent airflows in the extra-thoracic and upper airways. Yet, a knowledge gap remains in providing experimentally-resolved 3D flow benchmarks with sufficient data density and completeness for useful comparison with widely-employed numerical schemes. Motivated by such shortcomings, the present work details to the best of our knowledge the first attempt to deliver in vitro-in silico correlations of 3D respiratory airflows in a generalized mouth-throat model and thereby assess the performance of Large Eddy Simulations (LES) and Reynolds-Averaged Numerical Simulations (RANS). Numerical predictions are compared against 3D volumetric flow measurements using Tomographic Particle Image Velocimetry (TPIV) at three steady inhalation flowrates varying from shallow to deep inhalation conditions. We find that a RANS k-ω SST model adequately predicts velocity flow patterns for Reynolds numbers spanning 1'500 to 7'000, supporting results in close proximity to a more computationally-expensive LES model. Yet, RANS significantly underestimates turbulent kinetic energy (TKE), thus underlining the advantages of LES as a higher-order turbulence modeling scheme. In an effort to bridge future endevours across respiratory research disciplines, we provide end users with the present in vitro-in silico correlation data for improved predictive CFD models towards inhalation therapy and therapeutic or toxic dosimetry endpoints.

This paper presents main paradigms of research for feature extraction methods to further augment the state of art in speaker recognition (SR) which has been recognized extensively in person identification for security and protection applications. Speaker recognition system (SRS) has become a widely researched topic for the last many decades. The basic concept of feature extraction methods is derived from the biological model of human auditory/vocal tract system. This work provides a classification-oriented review of feature extraction methods for SR over the last 55 years that are proven to be successful and have become the new stone to further research. Broadly, the review work is dichotomized into feature extraction methods with and without noise compensation techniques. Feature extraction methods without noise compensation techniques are divided into following categories: On the basis of high/low level of feature extraction; type of transform; speech production/auditory system; type of feature extraction technique; time variability; speech processing techniques. Further, feature extraction methods with noise compensation techniques are classified into noise-screened features, feature normalization methods, feature compensation methods. This classification-oriented review would endow the clear vision of readers to choose among different techniques and will be helpful in future research in this field.

This research proposes a pattern/shape‐similarity‐based clustering approach for time series prediction. This article uses single hidden Markov model (HMM) for clustering and combines it with soft computing techniques (fuzzy inference system/artificial neural network) for the prediction of time series. Instead of using distance function as an index of similarity, here shape/pattern of the sequence is used as the similarity index for clustering, which overcomes few of the shortcomings associated with distance‐based clustering approaches. Underlying hidden properties of time series are captured with the help of HMM. The prediction method used here exploits the pattern identification prowess of the HMM for cluster selection and the generalization and nonlinear modeling capabilities of soft computing methods to predict the output of the system. To see the validity of the proposed method in the real‐life scenario, it is tested on four different time series. The first is a benchmark Mackey–Glass time series, which is tested for delay parameters τ = 17 and τ = 30. The remaining time series are monthly sunspot data time series, Laser data time series and the last is Lorenz attractor time series. Simulation results show that the proposed method provide a better prediction performance in comparison with the existing methods.

This paper presents three novel methods for speaker identification of which two methods utilize both the continuous density hidden Markov model (HMM) and the generalized fuzzy model (GFM), which has the advantages of both Mamdani and Takagi-Sugeno models. In the first method, the HMM is utilized for the extraction of shape-based batch feature vector that is fitted with the GFM to identify the speaker. On the other hand, the second method makes use of the Gaussian mixture model (GMM) and the GFM for the identification of speakers. Finally, the third method has been inspired by the way humans cash in on the mutual acquaintances while identifying a speaker. To see the validity of the proposed models [HMM-GFM, GMM-GFM, and HMM-GFM (fusion)] in a real-life scenario, they are tested on VoxForge speech corpus and on the subset of the 2003 National Institute of Standards and Technology evaluation data set. These models are also evaluated on the corrupted VoxForge speech corpus by mixing with different types of noisy signals at different values of signal-to-noise ratios, and their performance is found superior to that of the well-known models.

This paper introduces a novel approach which uses a Hidden Markov Model (HMM) based Fuzzy Inference System (FIS) for prediction of systems that are non deterministic, dynamical and chaotic in nature. The HMM is used for shape based batch creation of training data which is then processed one batch at a time by a FIS. The Membership functions and Rule Base of the FIS are tweaked to predict the correct output for an input dataset. The novel Prediction method used here exploits the Pattern Identification prowess of the HMM for batch selection and the FIS of each batch to predict the output of the system. The Benchmark applications of the Mackey Glass Time Series (MGTS) as well as the Sunspot Data time-series were used for testing the competence of this method.