Rome III diagnostic criteria for functional dyspepsia [1]
\r\n\tVarious disciplines characterize the constituent components comprising mechatronics, which include physical systems modeling, sensors and actuators, signals and systems, computers and logic systems, and software and data acquisition.
\r\n\tMany new MEMS and Nanotechnology applications will emerge, expanding beyond that which is currently identified or known. Here are a few applications of current interest: new phenomena are addressed nowadays in science and technology.
\r\n\tIn this book, we will deal with physical systems modeling., discuss the physical phenomena involved, the adequate methodology to deal with them, and report a selection of papers recently published for possible applications for MEMS and Nanotechnology.
\r\n\r\n\tIn summary, Nano- and micro-electromechanical systems (NEMS/MEMS) are useful for applications ranging from: The design of MEMS accelerometers, gyroscopes, electrostatic actuators, and microresonators; Interfacial engineering for NEMS/MEMS; Biosensors, magnetic biochips, in vitro diagnostics, cell sorting, magnetic nanoparticles, spin electronic materials and sensors, magnetic inductive heads, and magnetic integrated inductors and transformer’s; Flexible substrates for electronics, sensors, and energy conversion platforms; Nanofabrication and nanopatterning technologies, including self-assembly for device fabrication.
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Dyspepsia is currently defined by Rome III criteria for the diagnosis of functional gastrointestinal disorders (FGIDs), as the presence of one or more of the following symptoms: bothersome postprandial fullness, early satiation, epigastric pain and epigastric burning [1] These are symptoms thought to originate from the gastroduodenal region. Bloating and nausea often coexist with dyspepsia but are considered nonspecific and are thus not included in the Rome III criteria. However, there have been attempts by some researchers to broaden this definition to include more symptoms. The Asian consensus guideline includes bloating, nausea, vomiting and belching in the definition of dyspepsia [2]
Dyspeptic patients who have not undergone any investigations are defined as having uninvestigated dyspepsia. An organic cause is found in only a minority who seek medical care [3, 4]. The remaining group is labeled as having functional dyspepsia (FD). Organic dyspepsia means there is a clear anatomic or pathophysiologic reason for the dyspeptic complaints, such as peptic ulcer or cancer. In contrast, when a diagnosis of functional dyspepsia has been made, it means that a number of investigations were performed including upper gastrointestinal endoscopy, and were found to be normal [5].
The need for more systematic description of FGIDs gave rise to the Rome process, which has evolved from Rome I in 1991 [6], Rome II in 1999 [7], to the most recent, which is Rome III [1]. According to Rome I and Rome II definitions, FD was defined as the presence of pain or discomfort centered in the upper abdomen, in the absence of organic disease that readily explained the symptoms [7]. While the meaning of pain is readily understood, the lack of an accurate definition for discomfort was a major limitation of Rome I. Rome I also included reflux symptoms in FD, and recognized a subgroup called “reflux-like dyspepsia”. Rome II tried to correct this by excluding patients with predominant heartburn from the definition of FD. Rome I and Rome II criteria did not account for meal-related symptoms and this was the fundamental change in Rome III criteria [8, 9].
Rome III criteria made a distinction between meal-induced symptoms and meal-unrelated symptoms, and this forms the basis of newly defined subcategories of FD:
Meal-induced dyspeptic symptoms (postprandial distress syndrome, which is characterized by postprandial fullness and early satiation)
Epigastric pain syndrome or EPS, characterized by epigastric pain and epigastric burning.
The traditional definition of FD portrays it as an idiopathic condition [10]. However, recent studies suggest that this condition have some pathophysiologic correlates. A diversity of changes in gastrointestinal structure and function has been described in this heterogeneous disorder. In this chapter, the author attempts to provide an overview of structural and physiological alterations in FD beyond those demonstrable by conventional tests used to separate organic dyspepsia from its functional counterpart.
According to Rome III criteria, FD must include one or more of the following symptoms: bothersome postprandial fullness, early satiation, epigastric pain and epigastric burning; with no evidence of structural disease, including use of upper gastrointestinal endoscopy, which is likely to explain the symptoms. Criteria should be fulfilled for at least 3 months with symptom onset at least 6 months previously [1].
Older terms that represent FD are non-ulcer dyspepsia, idiopathic or essential dyspepsia. The term non ulcer dyspepsia is still popular but no longer recommended because it implies that the patient has symptoms similar to peptic ulcer disease without having an actual ulcer on endoscopic examination. The spectrum of symptoms in FD includes epigastric pain syndrome and postprandial distress syndrome
At least 3 months, with onset at least 6 months previously, of one or more of the following: | \n\t\t
• bothersome postprandial fullness • early satiation • epigastric pain • epigastric burning | \n\t\t
AND | \n\t\t
No evidence of structural disease (including upper endoscopy) that is likely to explain the symptoms. | \n\t\t
Rome III diagnostic criteria for functional dyspepsia [1]
The Rome III committee proposed a distinction between meal-induced symptoms and meal-unrelated symptoms to be pathophysiologically, clinically and therapeutically relevant.
Epigastric pain syndrome:
Epigastric pain
Epigastric refers to the region between the umbilicus and lower end of the sternum, and marked by the midclavicular lines. Pain refers to a subjective, unpleasant sensation; some patients may feel that tissue damage is occurring.
Epigastric burning
Epigastric refers to the region between the umbilicus and lower end of the sternum, and marked by the midclavicular lines. Burning refers to an unpleasant subjective sensation of heat.
Postprandial distress syndrome:
Recent research findings indicate that postprandial distress syndrome and epigastric pain syndrome overlap in majority of patients with FD [11]. The implication of this is that the value of dividing FD into the subgroups of postprandial distress syndrome and epigastric pain syndrome is thus questionable [11]
The introduction of Rome criteria and Rome process was a milestone in the management of FGIDs. However, the high turnover of Rome criteria is a testimony to the fact that symptom-based diagnosis has limitations. Symptoms may be perceived differently within different cultures and languages. It has been recommended that the current Rome III questionnaire be translated into local languages [12]. Symptoms are poor predictors of FD and significant overlaps are often seen with functional disorders including functional heartburn and irritable bowel syndrome. [13-22].
One of the difficulties encountered in evaluating a patient with dyspepsia is that symptoms are nonspecific and cannot accurately differentiate an organic process from a functional disorder. Neither clinical impression, nor computer models incorporating patient demographics, risk factors, history items, and symptoms can distinguish between organic and functional disease in patients referred for endoscopic evaluation of dyspepsia( [23].
There is also a high degree of overlap between FD symptoms and those of gastroparesis [1, 24-29]. In FD, the predominant sensation of early satiety was found to be closely associated with impaired accommodation, although it was also present in more than 30% of patients with delayed gastric emptying [26]. Nausea and vomiting, thought to be cardinal symptoms of gastroparesis, are present in at least 20-50% of patients with FD [25, 30, 31]. Epigastric pain thought to be a cardinal symptom of FD is also present in up to 90% of patients with gastroparesis (GP) [32, 33]. Generally, common symptoms of gastric neuromuscular dysfunction are nonspecific and cannot reliably predict the underlying pathophysiology [24-26, 34]. Furthermore, recent research data indicate that rapid gastric emptying has been implicated in functional dyspepsia symptoms, especially in the postprandial distress syndrome [35, 36]. Enhanced antral contractility, decreased duodenal feedback inhibition and impaired accommodation represent the underlying mechanisms [37, 38].
The current approach is to view functional dyspepsia and idiopathic gastroparesis, not as completely distinct disorders, but as a broad, continuous spectrum, with significant overlap. It has been proposed that these 2 entities be reclassified under the umbrella term of functional dyspepsia with or without disordered gastric emptying [39], to enable clinicians and researchers to focus on predominant symptoms expressed by the majority of patients with this disorder.
Older age is an important predictor for the presence of organic disease. The American Gastroenterological Association recommends proceeding directly to endoscopy in patients older than 55 years [40], however, there has been debate about a lower cut-off age of 35 to 45 years in men [41]. The optimal age threshold for endoscopy is unclear but 55 years seems a reasonable cut-off because cancer is rare in younger patients but no age threshold is absolute [42] Age specific thresholds to trigger endoscopic evaluation may differ by sex and locality [43, 44] Prompt endoscopy in patients over 50 years regardless of alarm status has been shown to increase the proportion of curable cases of upper gastrointestinal malignancies by as much as 30% [45-47], but the cost-effectiveness of initial endoscopy in this age group for improving survival of cancer patients is uncertain [47, 48]. Distinct upper gastrointestinal malignancy incidence rates and various distributions of its topographical types in different populations [49-52], as well as differences in Helicobacter pylori infection rates [53, 54] could partly explain the variable results.
Alarm features include unintended weight loss, family history of upper gastrointestinal cancer, gastrointestinal bleeding, progressive dysphagia, odynophagia, unexplained iron deficiency anemia, persistent vomiting, palpable mass, lymphadenopathy and jaundice. These features are useful in identifying high risk patients who need early endoscopy. The absence of alarm features makes the likelihood of finding important structural causes for dyspepsia very low. However, a meta-analysis found that negative predictive value of alarm features was poor (6%) [55]. Worse still, subjects with organic pathologies may also have FD. [56]
Testing for Helicobacter pylori in dyspepsia may be used to select the subgroup of dyspeptic patients who have Helicobacter-related dyspepsia. The Asian consensus guideline posits that this is strictly not a form of FD. Proponents of this argue that gastritis can now be identified easily with advanced endoscopic techniques, and that Helicobacter pylori-dyspepsia is a form of post-infectious FD [2]. Exclusion of Helicobacter pylori infection should be an important part of diagnostic exercise in parts of the world where the burden of infection is high [2]. The effect of Helicobacter pylori eradication on the amelioration of symptoms in patients with FD has been evaluated in several large, well-designed, randomized controlled trials, but the results were conflicting [57-61]. Eradication of Helicobacter pylori in FD appears to improve dyspeptic symptoms more in the Chinese population than in Western populations [2]
The accommodation reflex is a vagally mediated volume response of the upper part of the stomach after a meal. After ingestion of food, the gastric fundus spontaneously dilates and begins to store food [62]. Impairment of this accommodation reflex is known to correlate well with dyspeptic symptoms especially early satiation [63, 64]. Enhanced perception of physiological signals arising from the stomach (visceral hypersensitivity) is considered a hallmark of functional gastrointestinal disorders including FD [65]. Such hypersensitivity can be reproduced acutely by different types of mechanical gastric distension [66, 67]. However, it has not been possible to conclusively identify the site and mechanisms underlying visceral hypersensitivity in FD.
Gastric barostat is gold standard for investigating gastric accommodation. It is however, invasive, time-consuming and uncomfortable to patients. Newer techniques include single photon emission computed tomography (SPECT) [64], 2- and 3- dimensional gastric ultrasound [68] and magnetic resonance imaging [69]. These are noninvasive but their high cost, sophistication and radiation exposure make them less attractive.
Drinking test is simpler [70]. It is based on the assumption that gastric volume is reduced with impaired accommodation and therefore limits the drinking volume. This test has been validated against the gastric barostat but the reproducibility is limited due to differences in types of drink and rates of drinking. In general these tests are poorly associated with dyspeptic symptoms and cannot predict a response to treatment in FD. Therefore they are not yet available for routine clinical use.
Gastroparesis is a syndrome characterized by delayed gastric emptying in absence of mechanical obstruction. Its causes include diabetes mellitus, post-surgical and idiopathic [71]. Delayed gastric emptying occurs in 23-59% of patients with FD [72]. Research has shown that delayed gastric emptying may be related to postprandial fullness and vomiting with symptoms being more frequently found in female patients than in males [73-75]. Other studies have failed to confirm any difference in the occurrence of FD symptoms between patients with normal or delayed gastric emptying [76, 77]
Assessment of gastric emptying is commonly performed for such indications as nausea, vomiting and dyspepsia. However, there is a poor correlation of symptoms to observed abnormalities.
Techniques of gastric emptying include scintigraphy, which is the standard method in clinical practice, but is associated with radiation exposure. Newer non-invasive methods include wireless motility capsule and gastric emptying breath testing. Ultrasound, single-photon emission computed tomography (SPECT) and magnetic resonance imaging (MRI) are predominantly research tools.
The duodenum is implicated in the pathophysiology of FD. Duodenal hypersensitivity and abnormal responses to various substances have been observed in FD.
Buspirone challenge test [81] is another chemical hypersensitivity test. This chemical is a serotonin 1A agonist that acts at the hypothalamic level to stimulate prolactin release. The extent of prolactin release following Buspirone challenge is a reliable measure of central 5HT sensitivity which can be impaired in patients with FD [82, 83].
Therapeutic trial may be employed as a means of diagnosis. This has proved successful in the management of GERD but the story in FD is entirely different because its pathogenesis is poorly understood and there is no effective treatment. Also, there is often a substantial placebo effect. The new drug, Acotiamide, an acetylcholinesterase inhibitor is promising and has been shown to be efficacious and safe in the elimination of meal-related FD symptoms [86]. Though not yet approved for treatment of FD, it holds high promise as no adverse events were recorded.
Eosinophils and mast cells may be specifically recruited to the duodenum, altering sensation and motility [87]. The duodenum, which is often ignored in the search for pathophysiologic explanations for FD may be key to the symptom experience in FD. Mast cells induce eosinophil migration and eosinophils activate mast cells [88]. Degranulation from mast cells and eosinophils leads to neural stimulation and smooth muscle contraction, which in turn results in gastrointestinal symptoms, such as abdominal pain and bloating [89]. While a significant increase in mast cells has not been observed in the duodenum of patients with FD, duodenal eosinophilia in FD has been described [90, 91]. This finding is exciting, because, in patients undergoing endoscopy, duodenal biopsy is safe and easy to perform. This finding also has a potential therapeutic implication which further research would unravel.
\n\t\t\t\t | \n\t\t\t\n\t\t\t\t | \n\t\t
Helicobacter pylori testing | \n\t\t\tUseful in identifying patients who have Helicobacter pylori – associated dyspepsia | \n\t\t
Gastric accommodation test | \n\t\t\tSeveral tests have been developed. Invasiveness, high cost, patient discomfort and radiation exposure remain challenges | \n\t\t
Gastric emptying test | \n\t\t\tScintigraphy is currently available for clinical use. | \n\t\t
Empirical treatment | \n\t\t\tNot a viable option because of poorly understood pathogenesis and lack of effective treatment | \n\t\t
Duodenal eosinophilia | \n\t\t\tInitial studies promising. Larger studies needed. | \n\t\t
Duodenal acid infusion | \n\t\t\tResults controversial | \n\t\t
Duodenal lipid infusion | \n\t\t\tDuodenal hypersensitivity to lipids consistently obtained from most studies | \n\t\t
Chemical hypersensitivity tests | \n\t\t\tSeveral candidate chemicals at various stages of development | \n\t\t
Summary of structural and functional abnormalities of the gastrointestinal tract in functional dyspepsia
In conclusion, dyspepsia is a very common clinical problem globally. Majority of patients with this problem have FD, defined traditionally as dyspepsia in which investigations, including upper gastrointestinal endoscopy fail to reveal a structural, biochemical or other pathophysiologic reason for the symptom. The pathophysiology of FD remains poorly understood.
Recent information from research shows that there are structural and physiological changes in FD that may hold the key to further understanding of the pathogenesis of this disease. These include Helicobacter pylori infection, abnormalities of gastric accommodation, abnormalities of gastric emptying, duodenal eosinophilia duodenal hypersensitivity to acid and lipids. These changes have prospects of being deployed in future for the diagnostic evaluation of FD. The implication of this is that FD may not be idiopathic after all. Research is likely to shed more light on this in future.
Rust diseases are the fungal diseases of plants, mainly grasses, caused by fungi. They affect the aerial plant parts especially leaves but can also attack stems and even flowers and fruits. They bear complex life cycles that require two alternative unrelated hosts. Rusts produce spore pustules which vary in color according to the rust species. About 7000 rust species are known to affect a variety of host plants globally. They can cause a wide range of symptoms depending upon the host species like the formation of Galls or swellings on the branches, formation of Canker on the trunks, and formation of Spores on the surface of the leaf. Leaf rust is also known as bown rust due to the brown color of circular urediniospores on the surfaces of the leaf of the crop. Yellow rust or stripe rust is characterized by the yellow color of stripes on the surfaces of the leaf. Stem rust is also brown and characterized by the patches of brown color on the surface of stems. Many approaches are being deployed to combat the problem of these diseases which involves accurate phenotyping which means characterization of the diseases at field level followed by genotyping to find out the genes responsible for its cause. Many germplasm resources are being explored and screened by scientists worldwide to find new sources of resistance. Precision phenotyping is the key requirement to achieve the goals. So far there are manual interventions involved to screen these diseases. But manual scoring of these diseases is a cumbersome job in large pre-breeding and breeding programs. Therefore, there is a strong need for high precision phenomics which involves imaging using high-quality cameras or equipment followed by image analysis using newly developed software and tools. In today’s era of artificial intelligence, it is possible to explore high-end phenomics to achieve better yields of important crops like wheat. Many machine learning and deep learning models have been tested and tried to analyze and characterize wheat fungal diseases [1, 2, 3, 4]. One of the main reasons for the popularity of these techniques is the use of GPUs (graphics processing units). The classification tools, computer vision, and GPUs are combined in a single framework called deep learning [5]. Deep learning-based models have been used in the various applications of agriculture for end-to-end learning. With the use of GPUs, deep learning can give a better solution to the given problem in a shorter time [6]. The process of building such models is computationally challenging but using GPU power becomes very easy [7, 8]. Fungal diseases have been identified using image processing techniques on different horticulture and agriculture crops. Various feature extraction and classification algorithm have been used to detect the different types of fruits, vegetables, and cereal crops.
Among the various rust diseases, soybean-, coffee-, and wheat-rusts are the most damaging diseases. Therefore, the constant efforts are being done worldwide, to combat this problem. Wheat is one of the staple food crops in addition to rice and maize. The total area under wheat in the world is around 220 million hectares with a production of 772.64 million metric tons (2020–2021). Wheat rusts especially leaf rust, stem rust, and yellow rusts are major fungal diseases that affect the production of the wheat crop throughout the world particularly in South Asian countries [9]. As per the prediction of the Food and Agricultural Organization (FAO) of the United Nations, wheat production might not be fulfilled the requirement in near future due to rapid population growth [10, 11]. In this chapter we discuss the usefulness of deep learning-based algorithms to identify rust using wheat as a case study.
Human perception is based on the interaction between the brain and the eye. On the other hand, computer vision system (CVS) is used to emulate human vision for gathering information without physical interaction [12, 13].
It is also defined as the process of automatic acquisition, and analysis from image data. CVS emulates the dynamic vision system whose operation is very transparent and natural. The data is processed in various stages such as capturing, processing, and analysis of images. Figure 1 depicts the steps involved during image processing. In the first stage, image acquisition and pre-processing are involved. The images can be acquired using high-resolution cameras and sensors. Further, the images are pre-processed through data cleaning, background removing, adding/removing noise, and also enhancing the quality of images. In the second stage, the images are segmented. The segmentation process involves extracting only important and useful information from the whole image that further helps in the discrimination of classes. In the third stage, the high-level analysis is performed in which direct emphasis is done on the recognition (objects) and interpretation (making results). In a CVS, the following attributes contribute to decision-making: shape, color, texture, and also size. Figure 2 depicts the utilization of various artificial intelligence algorithms in plant disease detection. These algorithms are further divided into machine learning and deep learning-based classifiers. The description of these algorithms is illustrated in the coming subsections.
Steps of image processing techniques.
Description of machine learning and deep learning algorithm used for plant disease detection.
Classification is the process of dividing the dataset into different categories or groups by adding labels. Nowadays, the machine learning and deep learning approaches are performing well for classifying the algorithm images based on their category. Following are the machine learning algorithms which are used to classify plant disease and are based on supervised learning. Supervised learning is a type of learning where labels (category of images) are given along with input images.
It is the machine learning algorithm used for classification and calculated by
It is the algorithm of machine learning which comes under supervised learning to solve regression and classification-based problems. The decision tree is the graphical representation of pre-defined rules along with the solution. The graph of the decision tree has two types of nodes: one is decision nodes and another is leaf nodes. Additionally, the edges store the information of the answers to the questions, and leaf nodes store the actual output. In Sabrol and Kumar [16], Chopda et al. [17] and Rajesh et al. [18], the authors reported appreciable results in plant disease classification and recognition.
Support vector machine (SVM) is a very popular classifier used in statistical learning. The classifier aims to discriminate the classes from each other. In SVM, a hyperplane is used to discriminate one class from another. Those points which are close to the hyperplane are referred to as support vectors. The task of the SVM is to classify the different categories based on some features. Additionally, this algorithm performs well in extreme classes. Let us consider, color, texture, shape are some features of a particular plant. If we consider two features such as color and texture to classify diseased and healthy leaves. To classify them, the optimal decision boundary is required. Optimal decision boundaries could result in greater misclassification for the new instance. Therefore, the boundary support vectors are very important than all the training examples. This algorithm works well for linearly separating data points whereas in some cases if the data points are not linearly separable then 2-dimensional (2D) feature spaces are converted into 3-dimensional feature spaces. But the only problem is that it is computationally very expensive. In addition to that, it provides kernel function which can reduce the computational cost to convert 2D feature space to 3-dimensional feature space. Using kernel function the dot product is performed between two vectors. Especially, this is used to transform non-linear to linear transformation space. Various popular kernel functions are polynomial, radial basis, sigmoid kernels used to change 2D data to high dimensional feature space. Choosing the best kernel is a non-trivial task and is a hyper-parameter that can be selected by performing various experiments on the data. The main benefit of using SVM is that it is memory efficient and effective for high-dimensional feature space data.
It is the special type of machine learning algorithm used for classification. The researchers have been working on artificial neural networks (ANNs) since the beginning of the 1980s [19]. ANNs are a special type of classification algorithm and their structure is inspired by the human brain. ANNs takes input from the external world in the form of feature vector or patterns. Each input value is multiplied by their corresponding weights that are summing with the bias value. Further, the result is mapped to the activation function (binary, sigmoid) and produced the output. Other than these algorithms, there are various algorithms available that reported appreciable results in image recognition such as Random Forest, Naive Bayes, many more. Initially, we started with the study of traditional computer vision approaches used for plant disease detection. Plant disease can be caused by fungi, bacteria, and viruses from which fungi are the common disease organism. It is the type of disease that can be formed by taking energy from plants. The fungal disease has been identified using image processing techniques on different horticulture/agriculture crops [20]. To detect the different types of fruits, vegetable, commercial, and cereal crops that have been utilized using various feature extraction and classification algorithms. They achieved appreciable classification accuracy to identify the disease from horticulture/agriculture crops. Han et al. proposed a novel technique for feature extraction using super-pixel and marker-controlled segmentation methods for the classification of yellow rust and septoria diseases. They have used SVM and ANN for these disease classifications. Their experimentation concludes that SVM classifiers outperformed well than ANN classifiers for the classification of disease [21]. Su et al. experimented with the detection of fungal yellow rust disease on wheat crops. The author collected RGB images with a high-resolution camera and there are a total of three different classes present in region of interest (RoI) as rust, healthy, and background. To monitor the yellow rust, they used the U-Net deep learning architecture and the results were compared with the Random Forest algorithm. They found that U-Net-based segmentation outperformed spectral images. In their work, the average precision of 81.06%, recall of 90.10%, and F1-score of 84.00% have been achieved to segment the disease from spectral images [22]. An application of Fuzzy C-Means clustering has been proposed as the model to identify the wheat leaf disease [23]. In their work, they extracted inter- and intra-class features and further combined them to build a model for identifying the different wheat plant diseases. Although the traditional machine learning-based techniques are performing well for image classification, still there are certain limitations such as it requires manual feature extraction and is only suitable for small datasets, which may lead to the over-fitting problem [23, 24].
Convolutional neural network (CNN) is a popular neural network, designed for solving computer vision problems. The architecture of CNNs is shown in Figure 3. The images are represented in the form of pixel values. In the convolution layers, the operation of convolution is performed i.e., the kernel is slide over the input image after choosing the padding and stride values at each layer. Thereafter, the power of non-linearity is to give the non-linear mapping with the input images in such a way that after the non-linear mapping it becomes linearly separable. ReLU activation function is used to change all the negative values to positive values. With this, the pooling layer is used to down sample the different feature maps for getting the most prominent features i.e., the convolution layer performs these triplet operations like convolution followed by ReLU and ReLU followed by pooling one after another. These triplets operations are typically stacked one after another and also based on these triplets, the depth of the neural network has been defined. After these layers, the network is followed by one or more fully connected layers which are responsible for classification.
The basic architecture of CNNs.
To build the CNN model, all the above-mentioned parameters play a very important role. To build the custom CNN model, the numbers of convolution layers, max-pool layer, number of filter values, filter size, stride, padding, number of fully connected layers need to be specified. Increasing the number of convolution layers will produce different feature maps and also increasing the fully-connected layers increase the training time of the model. Although, the custom CNN model reported appreciable accuracy. The process of creating a custom CNN model takes more time. Therefore, the concept of transfer learning comes into the picture. Transfer learning is a concept of deep learning where the weights of pre-trained models are reused for a new problem. Every year, there is a competition held on the ImageNet dataset. Many researchers developed new models to classify the different objects of the ImageNet dataset and reported good classification accuracy and reduced error rate. There are variants of transfer learning models such as ResNet, GoogleNet, and EfficientNet varied in terms of the number of layers, filter size, number of filters used, stride, padding, and so on. Some of the few models are elaborated as given below:
Modern deep learning architectures are significantly popular to solve agriculture-related problems. Sladojevic et al. developed a CNNs based model for plant disease classification. The model recognized 13 different types of plants. In their work, they used 30,880 images in the training and 2589 images for validation and reported a classification accuracy of 96.30% [25]. Zhang et al. proposed a deep learning model for the detection of rust disease of wheat crop from hyperspectral images. In their work, they automate the process of detecting yellow rust-captured images from unmanned aerial vehicle (UAV). Yellow rust is a fungal disease that can cause 100% loss for the wheat crop. The author used the Inception-ResNet model for feature extraction and reported the highest accuracy of 85.00% when compared with the random forest that was 77.00% [26]. A deep learning model has been built for grading wheat stripe rust disease [27]. In their work, they used different mobile devices to capture images and build their dataset, referred WSRgrading. It contained 5242 wheat leaf images at six different levels. They build and proposed the model by adding an attention layer in the pre-trained DenseNet model and build a new model named as C-DenseNet which has been reported a good classification accuracy of 97.99%. Genaev et al. classify the rust disease from the wheat crop. In their work, they used the CGIAR dataset, containing three classes (healthy wheat, leaf rust, and stem rust). They implemented the DenseNet transfer learning model and reported the F1-score and AUC of 0.90 and 0.98, respectively [28]. Jia et al. in proposed the model for detection and segmentation of fruit features for optimal harvesting of apples using Mask R-CNN. ResNet model was used as the backbone of this network. The model was tested on 120 images and reported precision and recall rates of 97.31% and 95.70%, respectively [29]. The shortage of the wheat disease dataset motivated the researchers to create the dataset which should be publicly available for all [30]. They are motivated to collect more data that will help the research community for conducting the research competitions on wheat diseases classification. Finally, they attempted to prepare their WFD2020 dataset which contains 2414 images. They performed their experiments using the EfficientNet CNN-based model and reported 94.20% classification accuracy.
In the recent decade, deep learning techniques are highly utilized for image processing. Deep learning models are producing appreciable results than machine learning methods [31]. Figure 4 depicts the utilization of computer vision approaches (i.e., old machine learning methods and modern deep learning approaches) for the wheat crop. These statistics have been built based on work done from the period (2015 to July 2021) for classifying most of the wheat crop diseases. Deep learning approaches include CNN-based architecture such as VGG16, ResNet, Faster R-CNN, and so on. In different circumstances, the traditional machine learning approaches include SVM, Random Forest, and so on. The analysis concludes that the modern deep learning architectures have been utilized more for classifying most of the wheat crops diseases as compared to traditional machine learning approaches.
Year-wise statistics publication of wheat disease detection.
There are standard datasets that are publicly available for research experimentation in the computer vision and image processing domain, such as PASCAL VOC [32], ImageNet [33], IMDB-Wiki [34], CIFAR [35], and PlantVillage [36]. CGIAR dataset is one of the dataset publicly available on https://www.kaggle.com/shadabhussain/cgiar-computer-vision-for-crop-disease [37]. This dataset was further distributed in three different classes of wheat rust i.e., healthy wheat, leaf rust, and stem rust. A sample of each class is shown in Figure 5. Most of the images in this dataset were collected by CIMMYT and its partners from Ethiopia and Tanzania. Additionally, a few images were sourced from the Google image database. The images in this dataset have the specific characteristics like (i) all are colored (ii) mixed format, (iii) different orientation, (iv) variable quality, and captured with different resolutions. The datasets are already classified into two categories i.e., 876 images and 610 images for training and testing, respectively. From the training dataset (i.e., 876 images) a total of 863 images have been filtered and considered for training the model. In the present study, the 863 images dataset was further split for training and validation in the ratio of 3:1 (i.e., 75% data in training and 25% into validation). Table 1 describes the class-wise distribution of this dataset. It is a challenging task to build an efficient model that is capable to classify all three classes of images accurately.
Sampled images of (a) healthy wheat plant, (b) leaf rust, and (c) stem rust.
Class label | Images | Training set | Validation set |
---|---|---|---|
Healthy wheat | 142 | 105 | 36 |
Leaf rust | 345 | 258 | 86 |
Stem rust | 376 | 283 | 95 |
Total images | 863 | 646 | 217 |
Class-wise distribution of image dataset.
Deep learning is a popular methodology used for image processing. In deep learning models, features are extracted automatically and little human intervention is required to train the model. Deep learning models are quite efficient to discover the internal structure or patterns of high-dimensional data. However, directly processing the original images leads to inappropriate recognition results, therefore, it is necessary to pre-process the images before feeding them to the model. Pre-processing involves e.g. resizing, enhancing, or removing noise of the input images. It is worth mentioning that CNNs perform better for image recognition and classification. There are various transfer learning models which are based on CNNs like AlexNet, VGG16, GoogleNet, and Inception V3, that are pre-trained on the ImageNet dataset. ImageNet is the standard dataset that contains 1000 different categories of objects. CNN’s based transfer learning models reported appreciable results to classify 1000 different objects present in the ImageNet dataset. In the present study, the VGG16 model has been utilized and the architecture is depicted in Figure 6. This model is the composition of 16-layers (13 convolution layers, and 3 fully connected layers). In this model, the images are processed in standard size i.e., 224 × 224. The reason for resizing the fixed image size is to extract the uniform or equal feature maps at the end of the convolution process. This model used a fixed size of kernel i.e., 3 × 3. Sometimes, the kernel is referred to as a filter that is responsible for extracting features from the given images. These extracted patterns or features might be horizontal edges, vertical edges, and a combination of both. Initially, a convolution process has been performed to extract the features, and thereafter the classification is done. In the convolution operation, the kernel/filter is sliding over the image starting from the top left to the bottom right corner to extract the features.
The architecture of VGG16 for wheat rust disease detection.
The movement of the kernel is either pixel-wise or by skipping some pixels using stride values. If the stride value is 1 then the movement of the kernel is shifted by one pixel after another and if the stride value is 2, then the movement of the kernel is shifted by two-pixel values during the operation of convolution. The convolution layers are used to identify the pattern or features from the images which further help in discriminating the classes. The initial layers extract the general features like edges and the subsequent layers extract the domain-specific features. Each convolution block is followed by the max-pool layer which is used for down-sampling the feature maps. In this process, the dimensionality of the image is reduced by retaining the most prominent feature. At the end of the convolution layers, different feature maps are generated as an output. These feature maps are further flattened and mapped with a fully connected layer in the classification module. Here, the model has a feature vector of size 4096 neurons also referred to as dense layer. This feature vector is further passed to the next dense layer of the same size. Finally, the last layer neurons are fully connected to the output neurons by using the soft-max activation function. However, in the current study, we considered the three classes classification problem. Therefore, the output layer changed to three classes using the soft-max probability function. The actual learning starts from data using forward and backward passes. In the forward pass, input neurons are multiplied with the weight values and also apply the activation function as ReLU. ReLU activation function adds non-linearity to the model i.e., all the negative pixel-values become positive after passing through it. On the other hand, in backward pass back-propagation is used to minimize the loss value. In this process, weights and biases are getting updated from the last to the initial layer by calculating the gradients at each layer using a convolution operator.
To summarize this model, the important and noticeable point is that this model has a total of 14,789,955 parameters but 75,267 are trainable parameters and the rest are non-trainable, the reason is that using transfer learning, the already trained weights have been used during building the model. Therefore, the model is trained in less time with fewer number parameters.
Hyper-parameter tuning is the backbone of any deep learning model. Finding the best parameters is a very tedious task, it needs many experiments to be performed while building the model. Hyper-parameters include learning rate, batch size, loss function, number of epochs, and optimizer is usually considered for tuning the model. To build the classification model for three classes each hyper-parameter is considered within a specific range. In this way, several experiments have been performed to build an efficient model. After performing some experiments with the variation in the given hyper-parameters, it was concluded that model accuracy is highly dependent on the batch size, learning rate, number of epochs, and size of the dataset. In the present study, the following hyper-parameters has been utilized:
As discussed in Section 3.1 image dataset of wheat disease classification has been utilized to train the model. We used the online google colab platform with GPU support. Among the performed experiments, we discuss the best one, which produces the highest training accuracy. Table 2 illustrates the training and validation accuracies obtained at different epochs (varied from 10 to 90) along with their loss values. Here, the training accuracy starts with 81.42% on 10 epochs and ends up with 99.54% on 80 epochs. We continued to compute the accuracy for the 90 epochs also but did not get any significant improvement in training accuracy. Although more experiments could be performed by increasing the number of epochs, the accuracy obtained at epoch 80 was quite promising. On the other hand, the validation accuracy fluctuating between 74.76% and 79.05% at different epochs, as shown in Figure 7. Similarly, it was observed that the training loss decreases at every increasing step of the epoch (from 10 to 80). Beyond that, the loss has started to increase. In contrast, the validation loss is fluctuating between 0.60 and 0.65 up to 40 epochs. Then, after 70 epochs it starts increasing rapidly (Figure 8).
Epochs | Training accuracy (in %) | Validation accuracy (in %) | Training loss | Validation loss |
---|---|---|---|---|
10 | 81.42 | 74.76 | 0.50 | 0.65 |
20 | 91.02 | 79.05 | 0.33 | 0.61 |
30 | 95.05 | 77.14 | 0.22 | 0.61 |
40 | 96.59 | 78.10 | 0.18 | 0.61 |
50 | 97.06 | 76.67 | 0.15 | 0.56 |
60 | 97.99 | 78.10 | 0.12 | 0.56 |
70 | 98.61 | 74.29 | 0.09 | 0.66 |
80 | 99.54 | 77.14 | 0.07 | 0.74 |
90 | 99.23 | 74.76 | 0.08 | 0.82 |
Comparison of training accuracy, validation accuracy, and training loss, and validation loss at different epochs.
Representation of the comparison of training and validation accuracy.
Representation of the comparison of training and validation loss.
To test the performance of the trained model, we performed the test experiments on the validation data (i.e., 25% of the total dataset). In this way, a total of 36 sample images of healthy leaf, 87 sample images of leaf rust, and 94 sample images of stem rust have been considered. The evaluation of the testing results was done using a confusion matrix. Figure 9 illustrates the accuracy and confusion with other intra-classes, wherein, it is shown that leaf rust class samples are confused with stem rust class samples due to less variation between classes.
Confusion matrix at epoch = 80.
To summarize this book chapter, different machine learning and deep learning-based models have been discussed to solve plant disease classification and detection problems. Considering a case study of wheat rust diseases, a deep learning-based model is proposed to classify the different wheat rust diseases using a pre-trained VGG16 model. Based on the CGIAR dataset with three classes (stem rust, leaf rust, and healthy wheat), the proposed model has been optimized and produced the classification accuracy of 99.54%, and when evaluated on unseen data it gave a validation accuracy of 77.14%. This model will further help farmers or experts to diagnose disease in the early stages. Although these models give good training accuracy, they were not appropriate to classify stem- and leaf rust when result plot on confusion metrics. This is due to the fact that some images in this dataset contained multiple diseases, meaning that one image contained the features of both leaf- and stem rust. Detection and classification of the wheat rust disease in the early stages lead to high yield at the production level [38]. In the future, we will extend this work by collecting real-time images of wheat rust disease and also incorporating object detection-based algorithms such as Yolov3, Faster R-CNN, and Mask R-CNN [39] to exactly localize the location of the disease in the image.
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Initial biochemical studies have been exclusively analytic: dissecting, purifying, and examining individual components of a biological system; in the apt words of Efraim Racker (1913 –1991), “Don’t waste clean thinking on dirty enzymes.” Today, however, biochemistry is becoming more agglomerative and comprehensive, setting out to integrate and describe entirely particular biological systems. The ‘big data’ metabolomics can define the complement of small molecules, e.g., in a soil or biofilm sample; proteomics can distinguish all the comprising proteins, e.g., serum; metagenomics can identify all the genes in a complex environment, e.g., the bovine rumen. 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Dr. Blumenberg’s research is focused on the epidermis, expression of keratin genes, transcription profiling, keratinocyte differentiation, inflammatory diseases and cancers, and most recently the effects of the microbiome on the skin. 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Other positions she has held at the university include Vice-Dean of Master Programs, Vice-Dean of the Degree in Biology and Vice-Dean for Mobility and Enterprise and Engagement at the Faculty of Science (University of Alicante). She received her Bachelor in Biology in 1998 (University of Alicante) and her PhD in 2003 (Biochemistry, University of Alicante). She undertook post-doctoral research at the University of East Anglia (Norwich, U.K. 2004-2005; 2007-2008).\nHer multidisciplinary research focuses on investigating archaea and their potential applications in biotechnology. She has an H-index of 21. She has authored one patent and has published more than 70 indexed papers and around 60 book chapters.\nShe has contributed to more than 150 national and international meetings during the last 15 years. Her research interests include archaea metabolism, enzymes purification and characterization, gene regulation, carotenoids and bioplastics production, antioxidant\ncompounds, waste water treatments, and brines bioremediation.\nRosa María’s other roles include editorial board member for several journals related\nto biochemistry, reviewer for more than 60 journals (biochemistry, molecular biology, biotechnology, chemistry and microbiology) and president of several organizing committees in international meetings related to the N-cycle or respiratory processes.",institutionString:null,institution:{name:"University of Alicante",institutionURL:null,country:{name:"Spain"}}},editorTwo:null,editorThree:null},{id:"15",title:"Chemical Biology",coverUrl:"https://cdn.intechopen.com/series_topics/covers/15.jpg",isOpenForSubmission:!0,editor:{id:"441442",title:"Dr.",name:"Şükrü",middleName:null,surname:"Beydemir",slug:"sukru-beydemir",fullName:"Şükrü Beydemir",profilePictureURL:"https://s3.us-east-1.amazonaws.com/intech-files/0033Y00003GsUoIQAV/Profile_Picture_1634557147521",biography:"Dr. Şükrü Beydemir obtained a BSc in Chemistry in 1995 from Yüzüncü Yıl University, MSc in Biochemistry in 1998, and PhD in Biochemistry in 2002 from Atatürk University, Turkey. He performed post-doctoral studies at Max-Planck Institute, Germany, and University of Florence, Italy in addition to making several scientific visits abroad. He currently works as a Full Professor of Biochemistry in the Faculty of Pharmacy, Anadolu University, Turkey. Dr. Beydemir has published over a hundred scientific papers spanning protein biochemistry, enzymology and medicinal chemistry, reviews, book chapters and presented several conferences to scientists worldwide. He has received numerous publication awards from various international scientific councils. He serves in the Editorial Board of several international journals. 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He is a member of the Turkish Biochemical Society, American Chemical Society, and German Genetics society. Dr. Ekinci published around ninety scientific papers, reviews and book chapters, and presented several conferences to scientists. He has received numerous publication awards from several scientific councils. 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He worked on the structure-function relationships of glycoconjugates and his main project was the investigations on the biological roles of the de-N-glycosylation enzymes (Endo-N-acetyl-β-D-glucosaminidase and peptide-N4-(N-acetyl-β-glucosaminyl) asparagine amidase). From 2002 he contributes to the understanding of the Blood-brain barrier functioning using proteomics approaches. He has published more than 70 papers. 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Since then, he has been working as an Adjunct Professor in the same Department at the University of Pavia. His research activity during the first years was primarily focused on the purification and structural characterization of enzymes from animal and plant sources. During this period, Prof. Iadarola familiarized himself with the conventional techniques used in column chromatography, spectrophotometry, manual Edman degradation, and electrophoresis). Since 1995, he has been working on: i) the determination in biological fluids (serum, urine, bronchoalveolar lavage, sputum) of proteolytic activities involved in the degradation processes of connective tissue matrix, and ii) on the identification of biological markers of lung diseases. 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She is now a lecturer at the University of Witwatersrand, South Africa, and a principal researcher at the Health Economics and Epidemiology Research Office (HE2RO), South Africa. Dr. Moolla holds a Ph.D. in Psychology with her research being focused on mental health and resilience. In her professional work capacity, her research has further expanded into the fields of early childhood development, mental health, the HIV and TB care cascades, as well as COVID. She is also a UNESCO-trained International Bioethics Facilitator.",institutionString:"University of the Witwatersrand",institution:{name:"University of the Witwatersrand",country:{name:"South Africa"}}},{id:"419588",title:"Ph.D.",name:"Sergio",middleName:"Alexandre",surname:"Gehrke",slug:"sergio-gehrke",fullName:"Sergio Gehrke",position:null,profilePictureURL:"https://s3.us-east-1.amazonaws.com/intech-files/0033Y000038WgMKQA0/Profile_Picture_2022-06-02T11:44:20.jpg",biography:"Dr. Sergio Alexandre Gehrke is a doctorate holder in two fields. The first is a Ph.D. in Cellular and Molecular Biology from the Pontificia Catholic University, Porto Alegre, Brazil, in 2010 and the other is an International Ph.D. in Bioengineering from the Universidad Miguel Hernandez, Elche/Alicante, Spain, obtained in 2020. In 2018, he completed a postdoctoral fellowship in Materials Engineering in the NUCLEMAT of the Pontificia Catholic University, Porto Alegre, Brazil. He is currently the Director of the Postgraduate Program in Implantology of the Bioface/UCAM/PgO (Montevideo, Uruguay), Director of the Cathedra of Biotechnology of the Catholic University of Murcia (Murcia, Spain), an Extraordinary Full Professor of the Catholic University of Murcia (Murcia, Spain) as well as the Director of the private center of research Biotecnos – Technology and Science (Montevideo, Uruguay). Applied biomaterials, cellular and molecular biology, and dental implants are among his research interests. He has published several original papers in renowned journals. In addition, he is also a Collaborating Professor in several Postgraduate programs at different universities all over the world.",institutionString:null,institution:{name:"Universidad Católica San Antonio de Murcia",country:{name:"Spain"}}},{id:"342152",title:"Dr.",name:"Santo",middleName:null,surname:"Grace Umesh",slug:"santo-grace-umesh",fullName:"Santo Grace Umesh",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/342152/images/16311_n.jpg",biography:null,institutionString:null,institution:{name:"SRM Dental College",country:{name:"India"}}},{id:"333647",title:"Dr.",name:"Shreya",middleName:null,surname:"Kishore",slug:"shreya-kishore",fullName:"Shreya Kishore",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/333647/images/14701_n.jpg",biography:"Dr. Shreya Kishore completed her Bachelor in Dental Surgery in Chettinad Dental College and Research Institute, Chennai, and her Master of Dental Surgery (Orthodontics) in Saveetha Dental College, Chennai. She is also Invisalign certified. She’s working as a Senior Lecturer in the Department of Orthodontics, SRM Dental College since November 2019. She is actively involved in teaching orthodontics to the undergraduates and the postgraduates. Her clinical research topics include new orthodontic brackets, fixed appliances and TADs. She’s published 4 articles in well renowned indexed journals and has a published patency of her own. Her private practice is currently limited to orthodontics and works as a consultant in various clinics.",institutionString:null,institution:{name:"SRM Dental College",country:{name:"India"}}},{id:"323731",title:"Prof.",name:"Deepak M.",middleName:"Macchindra",surname:"Vikhe",slug:"deepak-m.-vikhe",fullName:"Deepak M. Vikhe",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/323731/images/13613_n.jpg",biography:"Dr Deepak M.Vikhe .\n\n\t\n\tDr Deepak M.Vikhe , completed his Masters & PhD in Prosthodontics from Rural Dental College, Loni securing third rank in the Pravara Institute of Medical Sciences Deemed University. He was awarded Dr.G.C.DAS Memorial Award for Research on Implants at 39th IPS conference Dubai (U A E).He has two patents under his name. He has received Dr.Saraswati medal award for best research for implant study in 2017.He has received Fully funded scholarship to Spain ,university of Santiago de Compostela. He has completed fellowship in Implantlogy from Noble Biocare. \nHe has attended various conferences and CDE programmes and has national publications to his credit. His field of interest is in Implant supported prosthesis. Presently he is working as a associate professor in the Dept of Prosthodontics, Rural Dental College, Loni and maintains a successful private practice specialising in Implantology at Rahata.\n\nEmail: drdeepak_mvikhe@yahoo.com..................",institutionString:null,institution:{name:"Pravara Institute of Medical Sciences",country:{name:"India"}}},{id:"204110",title:"Dr.",name:"Ahmed A.",middleName:null,surname:"Madfa",slug:"ahmed-a.-madfa",fullName:"Ahmed A. Madfa",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/204110/images/system/204110.jpg",biography:"Dr. Madfa is currently Associate Professor of Endodontics at Thamar University and a visiting lecturer at Sana'a University and University of Sciences and Technology. He has more than 6 years of experience in teaching. His research interests include root canal morphology, functionally graded concept, dental biomaterials, epidemiology and dental education, biomimetic restoration, finite element analysis and endodontic regeneration. Dr. Madfa has numerous international publications, full articles, two patents, a book and a book chapter. Furthermore, he won 14 international scientific awards. Furthermore, he is involved in many academic activities ranging from editorial board member, reviewer for many international journals and postgraduate students' supervisor. Besides, I deliver many courses and training workshops at various scientific events. Dr. Madfa also regularly attends international conferences and holds administrative positions (Deputy Dean of the Faculty for Students’ & Academic Affairs and Deputy Head of Research Unit).",institutionString:"Thamar University",institution:null},{id:"210472",title:"Dr.",name:"Nermin",middleName:"Mohammed Ahmed",surname:"Yussif",slug:"nermin-yussif",fullName:"Nermin Yussif",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/210472/images/system/210472.jpg",biography:"Dr. Nermin Mohammed Ahmed Yussif is working at the Faculty of dentistry, University for October university for modern sciences and arts (MSA). Her areas of expertise include: periodontology, dental laserology, oral implantology, periodontal plastic surgeries, oral mesotherapy, nutrition, dental pharmacology. She is an editor and reviewer in numerous international journals.",institutionString:"MSA University",institution:null},{id:"204606",title:"Dr.",name:"Serdar",middleName:null,surname:"Gözler",slug:"serdar-gozler",fullName:"Serdar Gözler",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/204606/images/system/204606.jpeg",biography:"Dr. Serdar Gözler has completed his undergraduate studies at the Marmara University Faculty of Dentistry in 1978, followed by an assistantship in the Prosthesis Department of Dicle University Faculty of Dentistry. Starting his PhD work on non-resilient overdentures with Assoc. Prof. Hüsnü Yavuzyılmaz, he continued his studies with Prof. Dr. Gürbüz Öztürk of Istanbul University Faculty of Dentistry Department of Prosthodontics, this time on Gnatology. He attended training programs on occlusion, neurology, neurophysiology, EMG, radiology and biostatistics. In 1982, he presented his PhD thesis \\Gerber and Lauritzen Occlusion Analysis Techniques: Diagnosis Values,\\ at Istanbul University School of Dentistry, Department of Prosthodontics. As he was also working with Prof. Senih Çalıkkocaoğlu on The Physiology of Chewing at the same time, Gözler has written a chapter in Çalıkkocaoğlu\\'s book \\Complete Prostheses\\ entitled \\The Place of Neuromuscular Mechanism in Prosthetic Dentistry.\\ The book was published five times since by the Istanbul University Publications. Having presented in various conferences about occlusion analysis until 1998, Dr. Gözler has also decided to use the T-Scan II occlusion analysis method. Having been personally trained by Dr. Robert Kerstein on this method, Dr. Gözler has been lecturing on the T-Scan Occlusion Analysis Method in conferences both in Turkey and abroad. Dr. Gözler has various articles and presentations on Digital Occlusion Analysis methods. He is now Head of the TMD Clinic at Prosthodontic Department of Faculty of Dentistry , Istanbul Aydın University , Turkey.",institutionString:"Istanbul Aydin University",institution:{name:"Istanbul Aydın University",country:{name:"Turkey"}}},{id:"240870",title:"Ph.D.",name:"Alaa Eddin Omar",middleName:null,surname:"Al Ostwani",slug:"alaa-eddin-omar-al-ostwani",fullName:"Alaa Eddin Omar Al Ostwani",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/240870/images/system/240870.jpeg",biography:"Dr. Al Ostwani Alaa Eddin Omar received his Master in dentistry from Damascus University in 2010, and his Ph.D. in Pediatric Dentistry from Damascus University in 2014. Dr. Al Ostwani is an assistant professor and faculty member at IUST University since 2014. \nDuring his academic experience, he has received several awards including the scientific research award from the Union of Arab Universities, the Syrian gold medal and the international gold medal for invention and creativity. Dr. Al Ostwani is a Member of the International Association of Dental Traumatology and the Syrian Society for Research and Preventive Dentistry since 2017. He is also a Member of the Reviewer Board of International Journal of Dental Medicine (IJDM), and the Indian Journal of Conservative and Endodontics since 2016.",institutionString:"International University for Science and Technology.",institution:{name:"Islamic University of Science and Technology",country:{name:"India"}}},{id:"42847",title:"Dr.",name:"Belma",middleName:null,surname:"Işik Aslan",slug:"belma-isik-aslan",fullName:"Belma Işik Aslan",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/42847/images/system/42847.jpg",biography:"Dr. Belma IşIk Aslan was born in 1976 in Ankara-TURKEY. After graduating from TED Ankara College in 1994, she attended to Gazi University, Faculty of Dentistry in Ankara. She completed her PhD in orthodontic education at Gazi University between 1999-2005. Dr. Işık Aslan stayed at the Providence Hospital Craniofacial Institude and Reconstructive Surgery in Michigan, USA for three months as an observer. She worked as a specialist doctor at Gazi University, Dentistry Faculty, Department of Orthodontics between 2005-2014. She was appointed as associate professor in January, 2014 and as professor in 2021. Dr. Işık Aslan still works as an instructor at the same faculty. She has published a total of 35 articles, 10 book chapters, 39 conference proceedings both internationally and nationally. Also she was the academic editor of the international book 'Current Advances in Orthodontics'. She is a member of the Turkish Orthodontic Society and Turkish Cleft Lip and Palate Society. She is married and has 2 children. Her knowledge of English is at an advanced level.",institutionString:"Gazi University Dentistry Faculty Department of Orthodontics",institution:null},{id:"178412",title:"Associate Prof.",name:"Guhan",middleName:null,surname:"Dergin",slug:"guhan-dergin",fullName:"Guhan Dergin",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/178412/images/6954_n.jpg",biography:"Assoc. Prof. Dr. Gühan Dergin was born in 1973 in Izmit. He graduated from Marmara University Faculty of Dentistry in 1999. He completed his specialty of OMFS surgery in Marmara University Faculty of Dentistry and obtained his PhD degree in 2006. In 2005, he was invited as a visiting doctor in the Oral and Maxillofacial Surgery Department of the University of North Carolina, USA, where he went on a scholarship. Dr. Dergin still continues his academic career as an associate professor in Marmara University Faculty of Dentistry. He has many articles in international and national scientific journals and chapters in books.",institutionString:null,institution:{name:"Marmara University",country:{name:"Turkey"}}},{id:"178414",title:"Prof.",name:"Yusuf",middleName:null,surname:"Emes",slug:"yusuf-emes",fullName:"Yusuf Emes",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/178414/images/6953_n.jpg",biography:"Born in Istanbul in 1974, Dr. Emes graduated from Istanbul University Faculty of Dentistry in 1997 and completed his PhD degree in Istanbul University faculty of Dentistry Department of Oral and Maxillofacial Surgery in 2005. He has papers published in international and national scientific journals, including research articles on implantology, oroantral fistulas, odontogenic cysts, and temporomandibular disorders. Dr. Emes is currently working as a full-time academic staff in Istanbul University faculty of Dentistry Department of Oral and Maxillofacial Surgery.",institutionString:null,institution:{name:"Istanbul University",country:{name:"Turkey"}}},{id:"192229",title:"Ph.D.",name:"Ana Luiza",middleName:null,surname:"De Carvalho Felippini",slug:"ana-luiza-de-carvalho-felippini",fullName:"Ana Luiza De Carvalho Felippini",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/192229/images/system/192229.jpg",biography:null,institutionString:"University of São Paulo",institution:{name:"University of Sao Paulo",country:{name:"Brazil"}}},{id:"256851",title:"Prof.",name:"Ayşe",middleName:null,surname:"Gülşen",slug:"ayse-gulsen",fullName:"Ayşe Gülşen",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/256851/images/9696_n.jpg",biography:"Dr. Ayşe Gülşen graduated in 1990 from Faculty of Dentistry, University of Ankara and did a postgraduate program at University of Gazi. \nShe worked as an observer and research assistant in Craniofacial Surgery Departments in New York, Providence Hospital in Michigan and Chang Gung Memorial Hospital in Taiwan. \nShe works as Craniofacial Orthodontist in Department of Aesthetic, Plastic and Reconstructive Surgery, Faculty of Medicine, University of Gazi, Ankara Turkey since 2004.",institutionString:"Univeristy of Gazi",institution:null},{id:"255366",title:"Prof.",name:"Tosun",middleName:null,surname:"Tosun",slug:"tosun-tosun",fullName:"Tosun Tosun",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/255366/images/7347_n.jpg",biography:"Graduated at the Faculty of Dentistry, University of Istanbul, Turkey in 1989;\nVisitor Assistant at the University of Padua, Italy and Branemark Osseointegration Center of Treviso, Italy between 1993-94;\nPhD thesis on oral implantology in University of Istanbul and was awarded the academic title “Dr.med.dent.”, 1997;\nHe was awarded the academic title “Doç.Dr.” (Associated Professor) in 2003;\nProficiency in Botulinum Toxin Applications, Reading-UK in 2009;\nMastership, RWTH Certificate in Laser Therapy in Dentistry, AALZ-Aachen University, Germany 2009-11;\nMaster of Science (MSc) in Laser Dentistry, University of Genoa, Italy 2013-14.\n\nDr.Tosun worked as Research Assistant in the Department of Oral Implantology, Faculty of Dentistry, University of Istanbul between 1990-2002. \nHe worked part-time as Consultant surgeon in Harvard Medical International Hospitals and John Hopkins Medicine, Istanbul between years 2007-09.\u2028He was contract Professor in the Department of Surgical and Diagnostic Sciences (DI.S.C.), Medical School, University of Genova, Italy between years 2011-16. \nSince 2015 he is visiting Professor at Medical School, University of Plovdiv, Bulgaria. \nCurrently he is Associated Prof.Dr. at the Dental School, Oral Surgery Dept., Istanbul Aydin University and since 2003 he works in his own private clinic in Istanbul, Turkey.\u2028\nDr.Tosun is reviewer in journal ‘Laser in Medical Sciences’, reviewer in journal ‘Folia Medica\\', a Fellow of the International Team for Implantology, Clinical Lecturer of DGZI German Association of Oral Implantology, Expert Lecturer of Laser&Health Academy, Country Representative of World Federation for Laser Dentistry, member of European Federation of Periodontology, member of Academy of Laser Dentistry. Dr.Tosun presents papers in international and national congresses and has scientific publications in international and national journals. He speaks english, spanish, italian and french.",institutionString:null,institution:{name:"Istanbul Aydın University",country:{name:"Turkey"}}},{id:"171887",title:"Prof.",name:"Zühre",middleName:null,surname:"Akarslan",slug:"zuhre-akarslan",fullName:"Zühre Akarslan",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/171887/images/system/171887.jpg",biography:"Zühre Akarslan was born in 1977 in Cyprus. She graduated from Gazi University Faculty of Dentistry, Ankara, Turkey in 2000. \r\nLater she received her Ph.D. degree from the Oral Diagnosis and Radiology Department; which was recently renamed as Oral and Dentomaxillofacial Radiology, from the same university. \r\nShe is working as a full-time Associate Professor and is a lecturer and an academic researcher. \r\nHer expertise areas are dental caries, cancer, dental fear and anxiety, gag reflex in dentistry, oral medicine, and dentomaxillofacial radiology.",institutionString:"Gazi University",institution:{name:"Gazi University",country:{name:"Turkey"}}},{id:"256417",title:"Associate Prof.",name:"Sanaz",middleName:null,surname:"Sadry",slug:"sanaz-sadry",fullName:"Sanaz Sadry",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/256417/images/8106_n.jpg",biography:null,institutionString:null,institution:null},{id:"272237",title:"Dr.",name:"Pinar",middleName:"Kiymet",surname:"Karataban",slug:"pinar-karataban",fullName:"Pinar Karataban",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/272237/images/8911_n.png",biography:"Assist.Prof.Dr.Pınar Kıymet Karataban, DDS PhD \n\nDr.Pınar Kıymet Karataban was born in Istanbul in 1975. After her graduation from Marmara University Faculty of Dentistry in 1998 she started her PhD in Paediatric Dentistry focused on children with special needs; mainly children with Cerebral Palsy. She finished her pHD thesis entitled \\'Investigation of occlusion via cast analysis and evaluation of dental caries prevalance, periodontal status and muscle dysfunctions in children with cerebral palsy” in 2008. She got her Assist. Proffessor degree in Istanbul Aydın University Paediatric Dentistry Department in 2015-2018. ın 2019 she started her new career in Bahcesehir University, Istanbul as Head of Department of Pediatric Dentistry. In 2020 she was accepted to BAU International University, Batumi as Professor of Pediatric Dentistry. She’s a lecturer in the same university meanwhile working part-time in private practice in Ege Dental Studio (https://www.egedisklinigi.com/) a multidisciplinary dental clinic in Istanbul. Her main interests are paleodontology, ancient and contemporary dentistry, oral microbiology, cerebral palsy and special care dentistry. She has national and international publications, scientific reports and is a member of IAPO (International Association for Paleodontology), IADH (International Association of Disability and Oral Health) and EAPD (European Association of Pediatric Dentistry).",institutionString:null,institution:null},{id:"202198",title:"Dr.",name:"Buket",middleName:null,surname:"Aybar",slug:"buket-aybar",fullName:"Buket Aybar",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/202198/images/6955_n.jpg",biography:"Buket Aybar, DDS, PhD, was born in 1971. She graduated from Istanbul University, Faculty of Dentistry, in 1992 and completed her PhD degree on Oral and Maxillofacial Surgery in Istanbul University in 1997.\nDr. Aybar is currently a full-time professor in Istanbul University, Faculty of Dentistry Department of Oral and Maxillofacial Surgery. She has teaching responsibilities in graduate and postgraduate programs. Her clinical practice includes mainly dentoalveolar surgery.\nHer topics of interest are biomaterials science and cell culture studies. She has many articles in international and national scientific journals and chapters in books; she also has participated in several scientific projects supported by Istanbul University Research fund.",institutionString:null,institution:null},{id:"260116",title:"Dr.",name:"Mehmet",middleName:null,surname:"Yaltirik",slug:"mehmet-yaltirik",fullName:"Mehmet Yaltirik",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/260116/images/7413_n.jpg",biography:"Birth Date 25.09.1965\r\nBirth Place Adana- Turkey\r\nSex Male\r\nMarrial Status Bachelor\r\nDriving License Acquired\r\nMother Tongue Turkish\r\n\r\nAddress:\r\nWork:University of Istanbul,Faculty of Dentistry, Department of Oral Surgery and Oral Medicine 34093 Capa,Istanbul- TURKIYE",institutionString:null,institution:null},{id:"172009",title:"Dr.",name:"Fatma Deniz",middleName:null,surname:"Uzuner",slug:"fatma-deniz-uzuner",fullName:"Fatma Deniz Uzuner",position:null,profilePictureURL:"https://mts.intechopen.com/storage/users/172009/images/7122_n.jpg",biography:"Dr. Deniz Uzuner was born in 1969 in Kocaeli-TURKEY. After graduating from TED Ankara College in 1986, she attended the Hacettepe University, Faculty of Dentistry in Ankara. \nIn 1993 she attended the Gazi University, Faculty of Dentistry, Department of Orthodontics for her PhD education. After finishing the PhD education, she worked as orthodontist in Ankara Dental Hospital under the Turkish Government, Ministry of Health and in a special Orthodontic Clinic till 2011. Between 2011 and 2016, Dr. Deniz Uzuner worked as a specialist in the Department of Orthodontics, Faculty of Dentistry, Gazi University in Ankara/Turkey. In 2016, she was appointed associate professor. Dr. Deniz Uzuner has authored 23 Journal Papers, 3 Book Chapters and has had 39 oral/poster presentations. She is a member of the Turkish Orthodontic Society. Her knowledge of English is at an advanced level.",institutionString:null,institution:null},{id:"332914",title:"Dr.",name:"Muhammad Saad",middleName:null,surname:"Shaikh",slug:"muhammad-saad-shaikh",fullName:"Muhammad Saad Shaikh",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"Jinnah Sindh Medical University",country:{name:"Pakistan"}}},{id:"315775",title:"Dr.",name:"Feng",middleName:null,surname:"Luo",slug:"feng-luo",fullName:"Feng Luo",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"Sichuan University",country:{name:"China"}}},{id:"423519",title:"Dr.",name:"Sizakele",middleName:null,surname:"Ngwenya",slug:"sizakele-ngwenya",fullName:"Sizakele Ngwenya",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"University of the Witwatersrand",country:{name:"South Africa"}}},{id:"419270",title:"Dr.",name:"Ann",middleName:null,surname:"Chianchitlert",slug:"ann-chianchitlert",fullName:"Ann Chianchitlert",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"Walailak University",country:{name:"Thailand"}}},{id:"419271",title:"Dr.",name:"Diane",middleName:null,surname:"Selvido",slug:"diane-selvido",fullName:"Diane Selvido",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"Walailak University",country:{name:"Thailand"}}},{id:"419272",title:"Dr.",name:"Irin",middleName:null,surname:"Sirisoontorn",slug:"irin-sirisoontorn",fullName:"Irin Sirisoontorn",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"Walailak University",country:{name:"Thailand"}}},{id:"355660",title:"Dr.",name:"Anitha",middleName:null,surname:"Mani",slug:"anitha-mani",fullName:"Anitha Mani",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"SRM Dental College",country:{name:"India"}}},{id:"355612",title:"Dr.",name:"Janani",middleName:null,surname:"Karthikeyan",slug:"janani-karthikeyan",fullName:"Janani Karthikeyan",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"SRM Dental College",country:{name:"India"}}},{id:"334400",title:"Dr.",name:"Suvetha",middleName:null,surname:"Siva",slug:"suvetha-siva",fullName:"Suvetha Siva",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",biography:null,institutionString:null,institution:{name:"SRM Dental College",country:{name:"India"}}}]}},subseries:{item:{id:"18",type:"subseries",title:"Proteomics",keywords:"Mono- and Two-Dimensional Gel Electrophoresis (1-and 2-DE), Liquid Chromatography (LC), Mass Spectrometry/Tandem Mass Spectrometry (MS; MS/MS), Proteins",scope:"With the recognition that the human genome cannot provide answers to the etiology of a disorder, changes in the proteins expressed by a genome became a focus in research. Thus proteomics, an area of research that detects all protein forms expressed in an organism, including splice isoforms and post-translational modifications, is more suitable than genomics for a comprehensive understanding of the biochemical processes that govern life. The most common proteomics applications are currently in the clinical field for the identification, in a variety of biological matrices, of biomarkers for diagnosis and therapeutic intervention of disorders. From the comparison of proteomic profiles of control and disease or different physiological states, which may emerge, changes in protein expression can provide new insights into the roles played by some proteins in human pathologies. Understanding how proteins function and interact with each other is another goal of proteomics that makes this approach even more intriguing. Specialized technology and expertise are required to assess the proteome of any biological sample. Currently, proteomics relies mainly on mass spectrometry (MS) combined with electrophoretic (1 or 2-DE-MS) and/or chromatographic techniques (LC-MS/MS). MS is an excellent tool that has gained popularity in proteomics because of its ability to gather a complex body of information such as cataloging protein expression, identifying protein modification sites, and defining protein interactions. The Proteomics topic aims to attract contributions on all aspects of MS-based proteomics that, by pushing the boundaries of MS capabilities, may address biological problems that have not been resolved yet.",coverUrl:"https://cdn.intechopen.com/series_topics/covers/18.jpg",hasOnlineFirst:!0,hasPublishedBooks:!0,annualVolume:11414,editor:{id:"200689",title:"Prof.",name:"Paolo",middleName:null,surname:"Iadarola",slug:"paolo-iadarola",fullName:"Paolo Iadarola",profilePictureURL:"https://s3.us-east-1.amazonaws.com/intech-files/0030O00002bSCl8QAG/Profile_Picture_1623568118342",biography:"Paolo Iadarola graduated with a degree in Chemistry from the University of Pavia (Italy) in July 1972. He then worked as an Assistant Professor at the Faculty of Science of the same University until 1984. In 1985, Prof. Iadarola became Associate Professor at the Department of Biology and Biotechnologies of the University of Pavia and retired in October 2017. Since then, he has been working as an Adjunct Professor in the same Department at the University of Pavia. His research activity during the first years was primarily focused on the purification and structural characterization of enzymes from animal and plant sources. During this period, Prof. Iadarola familiarized himself with the conventional techniques used in column chromatography, spectrophotometry, manual Edman degradation, and electrophoresis). Since 1995, he has been working on: i) the determination in biological fluids (serum, urine, bronchoalveolar lavage, sputum) of proteolytic activities involved in the degradation processes of connective tissue matrix, and ii) on the identification of biological markers of lung diseases. In this context, he has developed and validated new methodologies (e.g., Capillary Electrophoresis coupled to Laser-Induced Fluorescence, CE-LIF) whose application enabled him to determine both the amounts of biochemical markers (Desmosines) in urine/serum of patients affected by Chronic Obstructive Pulmonary Disease (COPD) and the activity of proteolytic enzymes (Human Neutrophil Elastase, Cathepsin G, Pseudomonas aeruginosa elastase) in sputa of these patients. More recently, Prof. Iadarola was involved in developing techniques such as two-dimensional electrophoresis coupled to liquid chromatography/mass spectrometry (2DE-LC/MS) for the proteomic analysis of biological fluids aimed at the identification of potential biomarkers of different lung diseases. He is the author of about 150 publications (According to Scopus: H-Index: 23; Total citations: 1568- According to WOS: H-Index: 20; Total Citations: 1296) of peer-reviewed international journals. He is a Consultant Reviewer for several journals, including the Journal of Chromatography A, Journal of Chromatography B, Plos ONE, Proteomes, International Journal of Molecular Science, Biotech, Electrophoresis, and others. He is also Associate Editor of Biotech.",institutionString:null,institution:{name:"University of Pavia",institutionURL:null,country:{name:"Italy"}}},editorTwo:{id:"201414",title:"Dr.",name:"Simona",middleName:null,surname:"Viglio",slug:"simona-viglio",fullName:"Simona Viglio",profilePictureURL:"https://s3.us-east-1.amazonaws.com/intech-files/0030O00002bRKDHQA4/Profile_Picture_1630402531487",biography:"Simona Viglio is an Associate Professor of Biochemistry at the Department of Molecular Medicine at the University of Pavia. She has been working since 1995 on the determination of proteolytic enzymes involved in the degradation process of connective tissue matrix and on the identification of biological markers of lung diseases. She gained considerable experience in developing and validating new methodologies whose applications allowed her to determine both the amount of biomarkers (Desmosine and Isodesmosine) in the urine of patients affected by COPD, and the activity of proteolytic enzymes (HNE, Cathepsin G, Pseudomonas aeruginosa elastase) in the sputa of these patients. Simona Viglio was also involved in research dealing with the supplementation of amino acids in patients with brain injury and chronic heart failure. She is presently engaged in the development of 2-DE and LC-MS techniques for the study of proteomics in biological fluids. The aim of this research is the identification of potential biomarkers of lung diseases. 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