叶冠尺度野鸭湖湿地植物群落含水量的高光谱估算模型

利用高光谱遥感技术定量估测野鸭湖湿地植被含水量,对于监测和诊断野鸭湖湿地植被的生理状况及生长趋势具有重要意义,也能够为高光谱遥感影像在野鸭湖湿地植被含水量诊断中的实际应用提供理论依据和技术支持.采用Field Spec 3野外高光谱辐射仪,获取了野鸭湖典型湿地植被冠层和叶片的光谱,并测定了对应的含水量.以上述实测数据为基础,首先以芦苇为例初步探明了不同含水量水平下典型湿地植被冠层和叶片光谱反射率的响应模式,然后采用相关性及单变量线性与非线性拟合分析技术,从冠层和叶片两种层次,对不同尺度下的含水量与“三边”参数及高光谱植被指数进行了分析拟合,并采用交叉检验中的3K-CV方法对估算模型进行了测试和检验,确立了不同尺度下野鸭湖湿地植被含水量的定量监测模型.结果表明:(1)随着含水量水平的增加,芦苇冠层与叶片光谱在可见光波段(350-760 nm)和红外波段(760-2500 nm)的反射率均呈逐渐降低趋势.(2)不同尺度含水量与选取的光谱特征参数整体上相关性较强,与“三边”参数基本上都呈极显著相关,相关系数最大达到0.906;与高光谱指数全部呈极显著相关,相关系数最小为0.455,最大达到0.919,并通过选取不同尺度上相关性最佳的光谱特征参数,分别基于“三边”参数和高光谱植被指数构建了不同尺度下的含水量估算模型.其中,冠层尺度下,黄边面积(SDy)与SRWI( Simple Ratio Water Index)的估算效果最好,估算模型分别为y=-9.462x2 -2.671x+0.608和y=0.219e1.010x;叶片尺度下,红边面积(SDr)与WI( Water Index)的估算效果最好,估算模型分别为y=0.562x+0.376和y=2.028x2 -0.476x-1.009.通过3K-CV的交叉验证,不同尺度下的含水量估算模型均取得了较为理想的预测精度,预测精度的最小值为94.92％,最大值为97.06％,表明估测模型具有较高的可靠性与普适性.(3)高光谱植被指数与含水量拟合方程的拟合度相对高于“三边”参数与之建立方程的拟合度,说明多波段组合的光谱特征参数更适合含水量的判别.     

High optical-throughput spectroscopic singlet oxygen and photosensitizer luminescence dosimeter for monitoring of photodynamic therapy

We report a high light-throughput spectroscopic dosimeter system that is able to noninvasively measure luminescence signals of singlet oxygen (¹O₂) produced during photodynamic therapy (PDT) using a CW (continuous wave) light source. The system is based on a compact, fiber-coupled, high collection efficiency spectrometer (>50% transmittance) designed to maximize optical throughput but with sufficient spectral resolution (~7 nm). This is adequate to detect ¹O₂ phosphorescence in the presence of strong luminescence background in vivo. This system provides simultaneous acquisition of multiple spectral data points, allowing for more accurate determination of luminescence baseline via spectral fitting and thus the extraction of ¹O₂ phosphorescence signal based solely on spectroscopic decomposition, without the need for time-gating. Simultaneous collection of photons at different wavelengths improves the quantum efficiency of the system when compared to sequential spectral measurements such as filter-wheel or tunable-filter based systems. A prototype system was tested during in vivo PDT tumor regression experiments using benzoporphyrin derivative (BPD) photosensitizer. It was found that the treatment efficacy (tumor growth inhibition rate) correlated more strongly with ¹O₂ phosphorescence than with PS fluorescence. These results indicate that this high photon-collection efficiency spectrometer instrument may offer a viable option for real-time ¹O₂ dosimetry during PDT treatment using CW light.     

An automated approach for fringe frequency estimation and removal in infrared spectroscopy and hyperspectral imaging of biological samples

In infrared spectroscopy of thin film samples, interference introduces distortions in spectra, commonly referred to as fringes. Fringes may alter absorbance peak ratios, which hampers the spectral analysis. We have previously introduced extended multiplicative signal correction (EMSC) for fringes correction. In the current article, we provide a robust open-source algorithm for fringe correction in infrared spectroscopy and propose several improvements to the Fringe EMSC model. The suggested algorithm achieves a more precise fringe frequency estimation by mean centering of the measured spectrum and applying a window function prior to the Fourier transform. It selects two frequencies from a user defined number of maxima in the Fourier domain. The improved Fringe EMSC algorithm is validated on two experimental datasets, one of them being a hyperspectral image. Techniques for separating sample spectra from background spectra in hyperspectral images, and techniques to identify spectra affected by fringes are also provided.     

Hyperspectral characterization of re‐epithelialization in an in vitro wound model

In vitro wound models are useful for research on wound re‐epithelialization. Hyperspectral imaging represents a non‐destructive alternative to histology analysis for detection of re‐epithelialization. This study aims to characterize the main optical behavior of a wound model in order to enable development of detection algorithms. K‐Means clustering and agglomerative analysis were used to group spatial regions based on the spectral behavior, and an inverse photon transport model was used to explain differences in optical properties. Six samples of the wound model were prepared from human tissue and followed over 22 days. Re‐epithelialization occurred at a mean rate of 0.24 mm²/day after day 8 to 10. Suppression of wound spectral features was the main feature characterizing re‐epithelialized and intact tissue. Modeling the photon transport through a diffuse layer placed on top of wound tissue properties reproduced the spectral behavior. The missing top layer represented by wounds is thus optically detectable using hyperspectral imaging.     

Enhanced spatial resolution for snapshot hyperspectral imaging of blood perfusion and melanin information within human tissue

We report a reconstruction method to achieve high spatial resolution for hyperspectral imaging of chromophore features in skin in vivo. The method utilizes an established structure‐adaptive normalized convolution algorithm to reconstruct high spatial resolution of hyperspectral images from snapshot low‐resolution hyperspectral image sequences captured by a snapshot spectral camera. The reconstructed images at chromophore‐sensitive wavebands are used to map the skin features of interest. We demonstrate the method experimentally by mapping the blood perfusion and melanin features (moles) on the facial skin. The method relaxes the constrains of the relatively low spatial resolution in the snapshot hyperspectral camera, making it more usable in imaging applications.     

Therapeutic prognosis of prostate cancer using surface-enhanced Raman scattering of patient urine and multivariate statistical analysis

Surface-enhanced Raman scattering (SERS) is highly sensitive and label-free analytical technique based on Raman spectroscopy aided by field-multiplying plasmonic nanostructures. We report the use of SERS measurements of patient urine in conjunction with biostatistical algorithms to assess the treatment response of prostate cancer (PCa) in 12 recurrent (Re) and 63 nonrecurrent (NRe) patient cohorts. Multiple Raman spectra are collected from each urine sample using monodisperse silver nanoparticles (AgNPs) for Raman signal enhancement. Genetic algorithms-partial least squares-linear discriminant analysis (GA-PLS-LDA) was employed to analyze the Raman spectra. Comprehensive GA-PLS-LDA analyses of these Raman spectral features (p = 3.50 × 10⁻¹⁶ ) yield an accuracy of 86.6%, sensitivity of 86.0%, and specificity 87.1% in differentiating the Re and NRe cohorts. Our study suggests that SERS combined with multivariate GA-PLS-LDA algorithm can potentially be used to detect and monitor the risk of PCa relapse and to aid with decision-making for optimal intermediate secondary therapy to recurred patients.     

Extended multiplicative signal correction for FTIR spectral quality test and pre‐processing of infrared imaging data

Spectral quality control is an important step in the analysis of infrared spectral data, however, often neglected in scientific literature. A frequently used quality test that was originally developed for infrared spectra of bacteria is provided by OPUS software from Bruker Optik GmbH. In this study, the OPUS quality test is applied to a large number of spectra of bacteria, yeasts and moulds and hyperspectral images of microorganisms. It is shown that the use of strict thresholds for parameters of the OPUS quality test leads to discarding too many spectra. A strategy for optimizing parameters thresholds of the OPUS quality test is provided and a novel approach for spectral quality testing based on extended multiplicative signal correction (EMSC) is suggested. For all the data sets considered in our study, the EMSC quality test is shown to be the best among different alternatives of OPUS quality test provided.     

Exploration research on the fusion of multimodal spectrum technology to improve performance of rapid diagnosis scheme for thyroid dysfunction

The spectral fusion by Raman spectroscopy and Fourier infrared spectroscopy combined with pattern recognition algorithms is utilized to diagnose thyroid dysfunction serum, and finds the spectral segment with the highest sensitivity to further advance diagnosis speed. Compared with the single infrared spectroscopy or Raman spectroscopy, the proposal can improve the detection accuracy, and can obtain more spectral features, indicating greater differences between thyroid dysfunction and normal serum samples. For discriminating different samples, principal component analysis (PCA) was first used for feature extraction to reduce the dimension of high‐dimension spectral data and spectral fusion. Then, support vector machine (SVM), back propagation neural network, extreme learning machine and learning vector quantization algorithms were employed to establish the discriminant diagnostic models. The accuracy of spectral fusion of the best analytical model PCA‐SVM, single Raman spectral accuracy and single infrared spectral accuracy is 83.48%, 78.26% and 80%, respectively. The accuracy of spectral fusion is higher than the accuracy of single spectrum in five classifiers. And the diagnostic accuracy of spectral fusion in the range of 2000 to 2500 cm^?1 is 81.74%, which greatly improves the sample measure speed and data analysis speed than analysis of full spectra. The results from our study demonstrate that the serum spectral fusion technique combined with multivariate statistical methods have great potential for the screening of thyroid dysfunction.     

Raman spectral discrimination in human liquid biopsies of oesophageal transformation to adenocarcinoma

The aim of this study was to determine whether Raman spectroscopy combined with chemometric analysis can be applied to interrogate biofluids (plasma, serum, saliva and urine) towards detecting oesophageal stages through to oesophageal adenocarcinoma [normal/squamous epithelium, inflammatory, Barrett's, low‐grade dysplasia, high‐grade dysplasia and oesophageal adenocarcinoma (OAC)]. The chemometric analysis of the spectral data was performed using principal component analysis, successive projections algorithm or genetic algorithm (GA) followed by quadratic discriminant analysis (QDA). The genetic algorithm quadratic discriminant analysis (GA‐QDA) model using a few selected wavenumbers for saliva and urine samples achieved 100% classification for all classes. For plasma and serum, the GA‐QDA model achieved excellent accuracy in all oesophageal stages (>90%). The main GA‐QDA features responsible for sample discrimination were: 1012 cm^?1 (C─O stretching of ribose), 1336 cm^?1 (Amide III and CH₂ wagging vibrations from glycine backbone), 1450 cm^?1 (methylene deformation) and 1660 cm^?1 (Amide I). The results of this study are promising and support the concept that Raman on biofluids may become a useful and objective diagnostic tool to identify oesophageal disease stages from squamous epithelium to OAC.     

Hyperspectral imaging and characterization of allergic contact dermatitis in the short‐wave infrared

Short‐wave infrared hyperspectral imaging is applied to diagnose and monitor a case of allergic contact dermatitis (ACD) due to poison ivy exposure in one subject. This approach directly demonstrates increased tissue fluid content in ACD lesional skin with a spectral signature that matches the spectral signature of intradermally injected normal saline. The best contrast between the affected and unaffected skin is achieved through a selection of specific wavelengths at 1070, 1340 and 1605 nm and combining them in a pseudo‐red‐green‐blue color space. An image derived from these wavelengths normalized to unaffected skin defines a “tissue fluid index” that may aid in the quantitative diagnosis and monitoring of ACD. Further clinical testing of this promising approach towards disease detection and monitoring with tissue fluid content quantification is warranted.     

First experience in clinical application of hyperspectral endoscopy for evaluation of colonic polyps

Early detection and resection of adenomatous polyps prevents their progression to colorectal cancer (CRC), significantly improving patient outcomes. Polyps are typically identified and removed during white-light colonoscopy. Unfortunately, the rate of interval cancers that arise between CRC screening events remains high, linked to poor visualization of polyps during screening and incomplete polyp removal. Here, we sought to evaluate the potential of a hyperspectral endoscope (HySE) to enhance polyp discrimination for detection and resection. We designed, built and tested a new compact HySE in a proof-of-concept clinical study. We successfully collected spectra from three tissue types in seven patients undergoing routine colonoscopy screening. The acquired spectral data from normal tissue and polyps, both pre- and post- resection, were subjected to quantitative analysis using spectral angle mapping and machine learning, which discriminated the data by tissue type, meriting further investigation of HySE as a clinical tool.     

A graphical user interface (NWUSA) for Raman spectral processing,analysis and feature recognition

It is a practical necessity for non-professional users to interpret biologically derived Raman spectral information for obtaining accurate and reliable analytical results. An integrated Raman spectral analysis software (NWUSA) was developed for spectral processing, analysis, and feature recognition. It provides a user-friendly graphical interface to perform the following preprocessing tasks: spectral range selection, cosmic ray removal, polynomial fitting based background subtraction, Savitzky–Golay smoothing, area-under-curve normalization, mean-centered procedure, as well as multivariate analysis algorithms including principal component analysis (PCA), linear discriminant analysis, partial least squares-discriminant analysis, support vector machine (SVM), and PCA-SVM. A spectral dataset obtained from two different samples was utilized to evaluate the performance of the developed software, which demonstrated that the analysis software can quickly and accurately achieve functional requirements in spectral data processing and feature recognition. Besides, the open-source software can not only be customized with more novel functional modules to suit the specific needs, but also benefit many Raman based investigations, especially for clinical usages.     

基于分数阶微分优化光谱指数的土壤电导率高光谱估算

土壤电导率与含盐量具有高度相关性,精准的土壤电导率监测有助于了解区域土壤的盐渍化程度,对区域盐渍化防治与调控,农业可持续发展以及生态文明建设具有重要意义。为寻求预测土壤电导率的最佳高光谱参数,实现土壤盐分信息的高效监测,本研究对土壤样品进行室内高光谱和电导率测定,利用两波段优化算法对简化光谱指数(nitrogen planar domain index, NPDI)进行波段优化,筛选不同高光谱数据(原始高光谱反射率及其对应的5种数学变换)运算下的最敏感高光谱参数,从而建立土壤电导率高光谱估算模型。结果表明:1)NPDIs与土壤电导率之间的相关性显著,在原数据及其平方根、倒数、对数倒数、1.6阶微分变换形式下,优化光谱指数对土壤电导率的敏感程度更强,相关系数绝对值均超过0.80,且基于1.6阶微分变换的(R_(2020nm)+R_(1893 nm))/R_(1893 nm)波段组合相关系数绝对值最高,达到0.888。2)基于1.6阶微分波段优化的预测模型效果最佳,预测精度为R■=0.84,RMSE_(Pre)=2.07mS/cm,RPD=2.94,AIC=158.11。因此,对高光谱数据的适当数学变换有利于优化光谱指数更好地估算土壤电导率,进一步实现土壤盐渍化高精度动态监测。     

3D-PulCNN: Pulmonary cancer classification from hyperspectral images using convolution combination unit based CNN

Pulmonary cancer is one of the most common malignancies worldwide. Accurate classification of its subtypes is required in differential diagnosis. However, existing algorithms are mostly based on color images, and the improvement of accuracy is quite challenging. In this study, we propose a convolution combination unit (CCU)-based three-dimensional convolutional neural network (3D-PulCNN) for classifying pulmonary cancer presented in microscopic hyperspectral image with both spatial and spectral information. CCU is designed to fuse the features acquired by different convolution scales. Compared with VGGNet, only two fully connected layers are used in this model, reducing the network parameters and model complexity. Experimental results show that 3D-PulCNN achieves overall average (OA) of 0.962 and Precision, Recall, and Kappa of more than 0.920, superior to 2D-VGGNet. Then, 3D-UNet is leveraged to segment cancer cells, and their morphological characteristics are calculated to supply quantitative virtual analysis data for classification results explanation and prognosis assessment.     

Optical coherence hyperspectral microscopy with a single supercontinuum light source

In the paper, we have developed an optical coherence hyperspectral microscopy with a single supercontinuum light source. The microscopy consists of optical coherence tomography (OCT) and hyperspectral imaging (HSI), which can visualize the structural and functional characteristics of biological tissues. The 500 to 700 nm band is selected for HSI and OCT imaging, where HSI enables imaging of oxygen saturation and hemoglobin (Hb) content, while OCT acquires structural characteristics to assess the morphology of biological tissues. The system performance of the optical coherence hyperspectral microscopy is verified by normal mice ears, and the practical applications of the microscopy is further performed in 4T1 and inflammation Balb/c mice ears in vivo. The experimental results demonstrate that the microscopy has potential to provide complementary information for clinical applications.     

Estimating photosynthetic traits from reflectance spectra: A synthesis of spectral indices,numerical inversion,and partial least square regression

The lack of efficient means to accurately infer photosynthetic traits constrains understanding global land carbon fluxes and improving photosynthetic pathways to increase crop yield. Here, we investigated whether a hyperspectral imaging camera mounted on a mobile platform could provide the capability to help resolve these challenges, focusing on three main approaches, that is, reflectance spectra-, spectral indices-, and numerical model inversions-based partial least square regression (PLSR) to estimate photosynthetic traits from canopy hyperspectral reflectance for 11 tobacco cultivars. Results showed that PLSR with inputs of reflectance spectra or spectral indices yielded an R² of ~0.8 for predicting V _cmax and J _max, higher than an R² of ~0.6 provided by PLSR of numerical inversions. Compared with PLSR of reflectance spectra, PLSR with spectral indices exhibited a better performance for predicting V _cmax (R² = 0.84 ± 0.02, RMSE = 33.8 ± 2.2 μmol m⁻² s⁻¹) while a similar performance for J _max (R² = 0.80 ± 0.03, RMSE = 22.6 ± 1.6 μmol m⁻² s⁻¹). Further analysis on spectral resampling revealed that V _cmax and J _max could be predicted with ~10 spectral bands at a spectral resolution of less than 14.7 nm. These results have important implications for improving photosynthetic pathways and mapping of photosynthesis across scales.     

Integrated photoacoustic and hyperspectral dual‐modality microscopy for co‐imaging of melanoma and cutaneous squamous cell carcinoma in vivo

Skin carcinoma such as melanoma (MM) and cutaneous squamous cell carcinoma (cSCC) are considered as the highest mortality and the most aggressive skin cancers in dermatology. In view that early diagnosis and treatment can greatly improve the survival rate and life quality of the patients, developing noninvasive and effective evaluation methods is of great significance for the detection and identification of early stage cutaneous cancers. In this article, we propose a hybrid photoacoustic and hyperspectral dual‐modality microscopy to evaluate and differentiate skin carcinoma by structural and multiphysiological parameters. The proposed system's imaging abilities are verified by mimic phantoms and normal mice experiments. Furthermore, in vivo characterization and evaluation results of MM and cSCC mice are obtained successfully, which prove this novel method could be used as a reliable and useful method for skin cancer detection in early stages.