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Bacterial heterogeneity is pivotal for adaptation to diverse environments, posing significant challenges in microbial diagnostics and therapeutic interventions. Recent advancements in high-resolution optical microscopy have revolutionized…

Biological Physics · Physics 2025-01-06 Dohyeon Lee , Hyun-Seung Lee , Moosung Lee , Minhee Kang , Geon Kim , Tae Yeul Kim , Nam Yong Lee , YongKeun Park

This work presents twelve fine-tuned deep learning architectures to solve the bacterial classification problem over the Digital Image of Bacterial Species Dataset. The base architectures were mainly published as mobile or efficient…

Computer Vision and Pattern Recognition · Computer Science 2021-06-14 R. Gallardo García , S. Jarquín Rodríguez , B. Beltrán Martínez , C. Hernández Gracidas , R. Martínez Torres

Raman spectroscopy enables non-destructive, label-free imaging with unprecedented molecular contrast but is limited by slow data acquisition, largely preventing high-throughput imaging applications. Here, we present a comprehensive…

Image and Video Processing · Electrical Eng. & Systems 2021-12-02 Conor C. Horgan , Magnus Jensen , Anika Nagelkerke , Jean-Phillipe St-Pierre , Tom Vercauteren , Molly M. Stevens , Mads S. Bergholt

In general, most of the substances in nature exist in mixtures, and the noninvasive identification of mixture composition with high speed and accuracy remains a difficult task. However, the development of Raman spectroscopy, machine…

Signal Processing · Electrical Eng. & Systems 2022-02-02 Liangrui Pan , Peng Zhang , Chalongrat Daengngam , Mitchai Chongcheawchamnan

Rapidly assaying the diversity of a bacterial species present in a sample obtained from a hospital patient or an evironmental source has become possible after recent technological advances in DNA sequencing. For several applications it is…

Distinguishing between swarming and swimming, the two principal forms of bacterial movement, holds significant conceptual and clinical relevance. This is because bacteria that exhibit swarming capabilities often possess unique properties…

Computer Vision and Pattern Recognition · Computer Science 2025-05-16 Yuzhu Li , Hao Li , Weijie Chen , Keelan O'Riordan , Neha Mani , Yuxuan Qi , Tairan Liu , Sridhar Mani , Aydogan Ozcan

The growing threat of antibiotic resistance necessitates accurate differentiation between bacterial and viral infections for proper antibiotic administration. In this study, a Virus vs. Bacteria machine learning model was developed to…

Strategies for in-liquid micro-organism detection are crucial for the clinical and pharmaceutical industries. While Raman spectroscopy is a promising label-free technique for micro-organism detection, it remains challenging due to the weak…

Raman scattering spectroscopy is widely used as an analytical technique in various fields, but its measurement process tends to be slow due to the low scattering cross-section. In the last decade, various broadband coherent Raman scattering…

Optics · Physics 2025-05-06 Takuma Nakamura , Kazuki Hashimoto , Takuro Ideguchi

New combinations of existing antibiotics are being investigated to combat bacterial resilience. This requires detection technologies with reasonable cost, accuracy, resolution, and throughput. Here, we present a multi -drug screening…

Signal Processing · Electrical Eng. & Systems 2022-05-25 Taejoon Kong , Nicholas Backes , Gregory Phillips , Santosh Pandey

Raman spectroscopy provides a vibrational profile of the molecules and thus can be used to uniquely identify different kind of materials. This sort of fingerprinting molecules has thus led to widespread application of Raman spectrum in…

We have developed a coherent Raman imaging platform using broadband coherent anti-Stokes Raman scattering (BCARS) that provides an unprecedented combination of speed, sensitivity, and spectral breadth. The system utilizes a unique…

Current detection and identification of micro-organisms is based on either rather unspecific rapid microscopy or on more accurate complex, time-consuming procedures. In a medical context, the determination of the bacteria Gram type is of…

Recently, the combination of robust one-dimensional convolutional neural networks (1-D CNNs) and Raman spectroscopy has shown great promise in rapid identification of unknown substances with good accuracy. Using this technique, researchers…

Computer Vision and Pattern Recognition · Computer Science 2021-06-11 M. Hamed Mozaffari , Li-Lin Tay

Purpose: Antimicrobial resistance is a major global health concern, affecting hospital admissions and treatment success. This study aims to introduce an experimental setup for monitoring bacterial activity over time using image-based…

Quantitative Methods · Quantitative Biology 2025-06-12 M. A. Gameiro , R. F. Pinto , N. V. Lopes

Antimicrobial susceptibility testing (AST) is a standard clinical procedure used to quantify antimicrobial resistance (AMR). Currently, the gold standard method requires incubation for 18-24 h and subsequent inspection for growth by a…

We demonstrate novel instrumentation for spontaneous Raman spectroscopy in biofluids, enabling development of a portable, automated, reliable diagnostics technique requiring minimal operator expertise to quantify disease markers. Label-free…

Biological Physics · Physics 2021-05-27 Emily E. Storey , Duxuan Wu , Amr S. Helmy

Bacterial infections are responsible for high mortality worldwide. Antimicrobial resistance underlying the infection, and multifaceted patient's clinical status can hamper the correct choice of antibiotic treatment. Randomized clinical…

Machine Learning · Statistics 2022-07-18 Inyoung Jun , Simone Marini , Christina A. Boucher , J. Glenn Morris , Jiang Bian , Mattia Prosperi

Diffuse Reflectance Spectroscopy has demonstrated a strong aptitude for identifying and differentiating biological tissues. However, the broadband and smooth nature of these signals require algorithmic processing, as they are often…

Image and Video Processing · Electrical Eng. & Systems 2025-03-06 Nicola Rossberg , Celina L. Li , Simone Innocente , Stefan Andersson-Engels , Katarzyna Komolibus , Barry O'Sullivan , Andrea Visentin

Two-dimensional (2D) materials have attracted extensive attention due to their unique characteristics and application potentials. Raman spectroscopy, as a rapid and non-destructive probe, exhibits distinct features and holds notable…

Applied Physics · Physics 2023-12-05 Yaping Qi , Dan Hu , Zhenping Wu , Ming Zheng , Guanghui Cheng , Yucheng Jiang , Yong P. Chen