A Machine Learning-Based Raman Spectroscopic Assay for the Identification of Burkholderia mallei and Related Species

Burkholderia (B.) mallei, the causative agent of glanders, and B. pseudomallei, the causative agent of melioidosis in humans and animals, are genetically closely related. The high infectious potential of both organisms, their serological cross-reactivity, and similar clinical symptoms in human and animals make the differentiation from each other and other Burkholderia species challenging. The increased resistance against many antibiotics implies the need for fast and robust identification methods. The use of Raman microspectroscopy in microbial diagnostic has the potential for rapid and reliable identification. Single bacterial cells are directly probed and a broad range of phenotypic information is recorded, which is subsequently analyzed by machine learning methods. Burkholderia were handled under biosafety level 1 (BSL 1) conditions after heat inactivation. The clusters of the spectral phenotypes and the diagnostic relevance of the Burkholderia spp. were considered for an advanced hierarchical machine learning approach. The strain panel for training involved 12 B. mallei, 13 B. pseudomallei and 11 other Burkholderia spp. type strains. The combination of top- and sub-level classifier identified the mallei-complex with high sensitivities (>95%). The reliable identification of unknown B. mallei and B. pseudomallei strains highlighted the robustness of the machine learning-based Raman spectroscopic assay

Topic Identification for Speech without ASR

Modern topic identification (topic ID) systems for speech use automatic speech recognition (ASR) to produce speech transcripts, and perform supervised classification on such ASR outputs. However, under resource-limited conditions, the manually transcribed speech required to develop standard ASR systems can be severely limited or unavailable. In this paper, we investigate alternative unsupervised solutions to obtaining tokenizations of speech in terms of a vocabulary of automatically discovered word-like or phoneme-like units, without depending on the supervised training of ASR systems. Moreover, using automatic phoneme-like tokenizations, we demonstrate that a convolutional neural network based framework for learning spoken document representations provides competitive performance compared to a standard bag-of-words representation, as evidenced by comprehensive topic ID evaluations on both single-label and multi-label classification tasks.Comment: 5 pages, 2 figures; accepted for publication at Interspeech 201