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hyperspectral imaging

Jakob Spiegelberg, Shunsuke Muto, Masahiro Ohtsuka, Kristiaan Pelckmans, Ján Rusz
This paper demonstrates how Signal Subspace Sampling (SSS) is an effective pre-processing step for Non-negative Matrix Factorization (NMF) or Vertex Component Analysis (VCA). The approach allows to uniquely extract non-negative source signals which are orthogonal in at least one observation channel, respectively. It is thus well suited for processing hyperspectral images from X-ray microscopy, or other emission spectroscopies, into its non-negative source components. The key idea is to resample the given data so as to satisfy better the necessity and sufficiency conditions for the subsequent NMF or VCA...
July 10, 2017: Ultramicroscopy
Hyungtae Lee, Heesung Kwon
In this paper, we describe a novel deep convolutional neural network (CNN) that is deeper and wider than other existing deep networks for hyperspectral image classification. Unlike current state-of-the-art approaches in CNN-based hyperspectral image classification, the proposed network, called contextual deep CNN, can optimally explore local contextual interactions by jointly exploiting local spatio-spectral relationships of neighboring individual pixel vectors. The joint exploitation of the spatio-spectral information is achieved by a multi-scale convolutional filter bank used as an initial component of the proposed CNN pipeline...
July 11, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
Wenxin Yin, Chu Zhang, Hongyan Zhu, Yanru Zhao, Yong He
Near-infrared (874-1734 nm) hyperspectral imaging (NIR-HSI) technique combined with chemometric methods was used to trace origins of 1200 Chinese wolfberry samples, which from Ningxia, Inner Mongolia, Sinkiang and Qinghai in China. Two approaches, named pixel-wise and object-wise, were investigated to discriminative the origin of these Chinese wolfberries. The pixel-wise classification assigned a class to each pixel from individual Chinese wolfberries, and with this approach, the differences in the Chinese wolfberries from four origins were reflected intuitively...
2017: PloS One
Simone Arrigoni, Giovanni Turra, Alberto Signoroni
With the rapid diffusion of Full Laboratory Automation systems, Clinical Microbiology is currently experiencing a new digital revolution. The ability to capture and process large amounts of visual data from microbiological specimen processing enables the definition of completely new objectives. These include the direct identification of pathogens growing on culturing plates, with expected improvements in rapid definition of the right treatment for patients affected by bacterial infections. In this framework, the synergies between light spectroscopy and image analysis, offered by hyperspectral imaging, are of prominent interest...
June 21, 2017: Computers in Biology and Medicine
Fan Wu, Amy Bortvedt, Bryan J Harper, Lauren E Crandon, Stacey L Harper
Research examining the direct and indirect ecological effects of nanomaterials in aquatic ecosystems is important for developing a more realistic understanding of the environmental implications of nanotechnology. Copper oxide nanoparticles (CuO NPs) are being used extensively in many industries but are considered highly toxic to aquatic species residing in surface waters. Few studies have addressed whether CuO NPs can be transferred through the aquatic food chain, and if such indirect exposure to nanomaterials impacts their toxicity...
June 26, 2017: Aquatic Toxicology
Astrid Avellan, Fabienne Schwab, Armand Masion, Perrine Chaurand, Daniel Borschneck, Vladimir Vidal, Jérôme Rose, Catherine Santaella, Clément Levard
Terrestrial plants can internalize and translocate nanoparticles (NPs). However, direct evidence for the processes driving the NP uptake and distribution in plants is scarce at the cellular level. Here, NP-root interactions were investigated after 10 days of exposure of Arabidopsis thaliana to 10 mg.L 1 of negatively or positively charged gold NPs ((-/+)Au-NPs, 13.4±1.3 nm, and 12.1±0.8 nm, respectively) in gels. Two complementary imaging tools were used: X-ray computed nanotomography (nano-CT), and enhanced dark-field microscopy combined with hyperspectral imaging (DF-HSI)...
July 7, 2017: Environmental Science & Technology
Mark J Schulte, Jason Solocinski, Mian Wang, Michelle Kovacs, Ryan Kilgore, Quinn Osgood, Lukas Underwood, Michael C Flickinger, Nilay Chakraborty
A system capable of biocatalytic conversion of distributed sources of single carbon gases such as carbon monoxide into hydrocarbons can be highly beneficial for developing commercially viable biotechnology applications in alternative energy. Several anaerobic bacterial strains can be used for such conversion. The anaerobic carbon monoxide-fixing bacteria Clostridium ljungdahlii OTA1 is a model CO assimilating microorganism that currently requires cryogenic temperature for storage of the viable strains. If these organisms can be stabilized and concentrated in thin films in advanced porous materials, it will enable development of high gas fraction, biocomposite absorbers with elevated carbon monoxide (CO) mass transfer rate, that require minimal power input and liquid, and demonstrate elevated substrate consumption rate compared to conventional suspended cell bioreactors...
2017: PloS One
Andrew W Browne, Cosimo Arnesano, Narine Harutyunyan, Thien Khuu, Juan Carlos Martinez, Harvey A Pollack, David S Koos, Thomas C Lee, Scott E Fraser, Rex A Moats, Jennifer G Aparicio, David Cobrinik
Purpose: Human pluripotent stem cell (hPSC)-derived retinal organoids are a platform for investigating retinal development, pathophysiology, and cellular therapies. In contrast to histologic analysis in which multiple specimens fixed at different times are used to reconstruct developmental processes, repeated analysis of the same living organoids provides a more direct means to characterize changes. New live imaging modalities can provide insights into retinal organoid structure and metabolic function during in vitro growth...
July 1, 2017: Investigative Ophthalmology & Visual Science
Thomas Udelhoven, Martin Schlerf, Karl Segl, Kaniska Mallick, Christian Bossung, Rebecca Retzlaff, Gilles Rock, Peter Fischer, Andreas Müller, Tobias Storch, Andreas Eisele, Dennis Weise, Werner Hupfer, Thiemo Knigge
This paper describes the concept of the hyperspectral Earth-observing thermal infrared (TIR) satellite mission HiTeSEM (High-resolution Temperature and Spectral Emissivity Mapping). The scientific goal is to measure specific key variables from the biosphere, hydrosphere, pedosphere, and geosphere related to two global problems of significant societal relevance: food security and human health. The key variables comprise land and sea surface radiation temperature and emissivity, surface moisture, thermal inertia, evapotranspiration, soil minerals and grain size components, soil organic carbon, plant physiological variables, and heat fluxes...
July 1, 2017: Sensors
Hui Feng, Zilong Guo, Wanneng Yang, Chenglong Huang, Guoxing Chen, Wei Fang, Xiong Xiong, Hongyu Zhang, Gongwei Wang, Lizhong Xiong, Qian Liu
With progress of genetic sequencing technology, plant genomics has experienced rapid development and subsequently triggered the progress of plant phenomics. In this study, a high-throughput hyperspectral imaging system (HHIS) was developed to obtain 1,540 hyperspectral indices at whole-plant level during tillering, heading, and ripening stages. These indices were used to quantify traditional agronomic traits and to explore genetic variation. We performed genome-wide association study (GWAS) of these indices and traditional agronomic traits in a global rice collection of 529 accessions...
June 30, 2017: Scientific Reports
Matheus Thomas Kuska, Anna Brugger, Stefan Thomas, Mirwaes Wahabzada, Kristian Kersting, Erich Christian Oerke, Ulrike Steiner, Anne-Katrin Mahlein
Differences in early plant-pathogen interactions are mainly characterized by using destructive methods. Optical sensors are advanced techniques for phenotyping host-pathogen interactions on different scales and for detecting subtle plant resistance responses against pathogens. A microscope with a hyperspectral camera was used to study interactions between Blumeria graminis f. sp. hordei and barley (Hordeum vulgare) genotypes with high susceptibility or resistance due to hypersensitive response (HR) and papilla formation...
June 30, 2017: Phytopathology
Jingyu Wang, Min Zhang, Zhongxue Gao, Benu Adhikari
Fresh foods are perishable, seasonal and regional in nature and their storage, transportation and preservation of freshness are quite challenging. Smart storage technologies can online detection and monitor the changes of quality parameters and storage environment of fresh foods during storage, so that operators can make timely adjustments to reduce the loss. This article reviews the smart storage technologies from two aspects: online detection technologies and smartly monitoring technologies for fresh foods...
June 30, 2017: Critical Reviews in Food Science and Nutrition
Qian Wang, Jianbiao Wang, Mei Zhou, Qingli Li, Yiting Wang
Microscopic examination is one of the most common methods for acute lymphoblastic leukemia (ALL) diagnosis. Most traditional methods of automized blood cell identification are based on RGB color or gray images captured by light microscopes. This paper presents an identification method combining both spectral and spatial features to identify lymphoblasts from lymphocytes in hyperspectral images. Normalization and encoding method is applied for spectral feature extraction and the support vector machine-recursive feature elimination (SVM-RFE) algorithm is presented for spatial feature determination...
June 1, 2017: Biomedical Optics Express
Yu John Hsu, Chih-Chiang Chen, Chien-Hsiang Huang, Chia-Hua Yeh, Li-Ying Liu, Szu-Yu Chen
Line-scanning hyperspectral imaging (LHSI) is known to have a higher acquisition rate but lower sectioning capability than point-scanning hyperspectral imaging. To further increase the axial imaging contrast of LHSI, structured illumination was integrated into line excitation to remove the off-focus and scattered on-focus fluorescence signals. In an unsectioned leaf, the imaging contrast can be enhanced by 8 times, while in sectioned mouse skin tissues, a 4.5-fold enhancement can be achieved. With a spectral resolution of 1...
June 1, 2017: Biomedical Optics Express
Jason G Dwight, Tomasz S Tkaczyk
Snapshot hyperspectral imaging augments pixel dwell time and acquisition speeds over existing scanning systems, making it a powerful tool for fluorescence microscopy. While most snapshot systems contain fixed datacube parameters (x,y,λ), our novel snapshot system, called the lenslet array tunable snapshot imaging spectrometer (LATIS), demonstrates tuning its average spectral resolution from 22.66 nm (80x80x22) to 13.94 nm (88x88x46) over 485 to 660 nm. We also describe a fixed LATIS with a datacube of 200x200x27 for larger field-of-view (FOV) imaging...
March 1, 2017: Biomedical Optics Express
Adam Shadfan, Hawraa Darwiche, Jesus Blanco, Ann Gillenwater, Rebecca Richards-Kortum, Tomasz S Tkaczyk
A multimodal endomicroscope was developed for cancer detection that combines hyperspectral and confocal imaging through a single foveated objective and a vibrating optical fiber bundle. Standard clinical examination has a limited ability to identify early stage oral cancer. Optical detection methods are typically restricted by either achievable resolution or a small field-of-view. By combining high resolution and widefield spectral imaging into a single probe, a device was developed that provides spectral and spatial information over a 5 mm field to locate suspicious lesions that can then be inspected in high resolution mode...
March 1, 2017: Biomedical Optics Express
Aziz Ul Rehman, Ayad G Anwer, Martin E Gosnell, Saabah B Mahbub, Guozhen Liu, Ewa M Goldys
Carbonyl cyanide-p-trifluoro methoxyphenylhydrazone (FCCP) is a well-known mitochondrial uncoupling agent. We examined FCCP-induced fluorescence quenching of reduced nicotinamide adenine dinucleotide / nicotinamide adenine dinucleotide phosphate (NAD(P)H) in solution and in cultured HeLa cells in a wide range of FCCP concentrations from 50 to 1000µM. A non-invasive label-free method of hyperspectral imaging of cell autofluorescence combined with unsupervised unmixing was used to separately isolate the emissions of free and bound NAD(P)H from cell autofluorescence...
March 1, 2017: Biomedical Optics Express
Konstantin B Yushkov, Vladimir Ya Molchanov
No abstract text is available yet for this article.
June 1, 2017: Journal of Biomedical Optics
Leticia Álvaro, João M M Linhares, Humberto Moreira, Julio Lillo, Sérgio M C Nascimento
Colour discrimination has been widely studied in red-green (R-G) dichromats but the extent to which their colour constancy is affected remains unclear. This work estimated the extent of colour constancy for four normal trichromatic observers and seven R-G dichromats when viewing natural scenes under simulated daylight illuminants. Hyperspectral imaging data from natural scenes were used to generate the stimuli on a calibrated CRT display. In experiment 1, observers viewed a reference scene illuminated by daylight with a correlated colour temperature (CCT) of 6700K; observers then viewed sequentially two versions of the same scene, one illuminated by either a higher or lower CCT (condition 1, pure CCT change with constant luminance) or a higher or lower average luminance (condition 2, pure luminance change with a constant CCT)...
2017: PloS One
Yufu Qu, Guirong Zhang, Zhaofan Zou, Ziyue Liu, Jiansen Mao
High accuracy target recognition and tracking systems using a single sensor or a passive multisensor set are susceptible to external interferences and exhibit environmental dependencies. These difficulties stem mainly from limitations to the available imaging frequency bands, and a general lack of coherent diversity of the available target-related data. This paper proposes an active multimodal sensor system for target recognition and tracking, consisting of a visible, an infrared, and a hyperspectral sensor...
June 28, 2017: Sensors
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