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1.
Sci Rep ; 14(1): 15537, 2024 Jul 05.
Article in English | MEDLINE | ID: mdl-38969738

ABSTRACT

Crop yield production could be enhanced for agricultural growth if various plant nutrition deficiencies, and diseases are identified and detected at early stages. Hence, continuous health monitoring of plant is very crucial for handling plant stress. The deep learning methods have proven its superior performances in the automated detection of plant diseases and nutrition deficiencies from visual symptoms in leaves. This article proposes a new deep learning method for plant nutrition deficiencies and disease classification using a graph convolutional network (GNN), added upon a base convolutional neural network (CNN). Sometimes, a global feature descriptor might fail to capture the vital region of a diseased leaf, which causes inaccurate classification of disease. To address this issue, regional feature learning is crucial for a holistic feature aggregation. In this work, region-based feature summarization at multi-scales is explored using spatial pyramidal pooling for discriminative feature representation. Furthermore, a GCN is developed to capacitate learning of finer details for classifying plant diseases and insufficiency of nutrients. The proposed method, called Plant Nutrition Deficiency and Disease Network (PND-Net), has been evaluated on two public datasets for nutrition deficiency, and two for disease classification using four backbone CNNs. The best classification performances of the proposed PND-Net are as follows: (a) 90.00% Banana and 90.54% Coffee nutrition deficiency; and (b) 96.18% Potato diseases and 84.30% on PlantDoc datasets using Xception backbone. Furthermore, additional experiments have been carried out for generalization, and the proposed method has achieved state-of-the-art performances on two public datasets, namely the Breast Cancer Histopathology Image Classification (BreakHis 40 × : 95.50%, and BreakHis 100 × : 96.79% accuracy) and Single cells in Pap smear images for cervical cancer classification (SIPaKMeD: 99.18% accuracy). Also, the proposed method has been evaluated using five-fold cross validation and achieved improved performances on these datasets. Clearly, the proposed PND-Net effectively boosts the performances of automated health analysis of various plants in real and intricate field environments, implying PND-Net's aptness for agricultural growth as well as human cancer classification.


Subject(s)
Deep Learning , Neural Networks, Computer , Plant Diseases , Plant Leaves , Humans
2.
IEEE Trans Med Imaging ; 40(12): 3919-3931, 2021 12.
Article in English | MEDLINE | ID: mdl-34329158

ABSTRACT

This paper proposes a novel local feature descriptor coined as a local instant-and-center-symmetric neighbor-based pattern of the extrema-images (LINPE) to detect breast abnormalities in thermal breast images. It is a hybrid descriptor that combines two different feature descriptors: one is the inverse-probability difference extrema (IpDE), and another is the local instant and center-symmetric neighbor-based pattern (LICsNP). IpDE is developed to compute the intensity-inhomogeneity-invariant feature-based image of the breast thermogram. Besides, the LICsNP is intended to capture the local microstructure pattern information in the IpDE image. A new paradigm, named Broad Learning (BL) network, is introduced here as a classifier to differentiate the healthy and sick breast thermograms efficiently. The efficacy of the proposed system is quantitatively validated on the images of DMR-IR and DBT-TU-JU databases. Extensive experimentation on these databases with an average accuracy of 96.90% and 94%, respectively, justifies proposed system's superiority in the differentiation of healthy and sick breast thermograms over the other related existing state-of-the-art methods. The proposed system also performs consistently in the presence of noise and rotational changes.


Subject(s)
Breast , Thermography , Breast/diagnostic imaging , Databases, Factual
3.
J Med Syst ; 45(2): 25, 2021 Jan 16.
Article in English | MEDLINE | ID: mdl-33452582

ABSTRACT

The microscope is one of the widely used pathological equipment to analyze body fluids like blood, sputum, etc. in granular level. In order to reduce workload on pathologists and strengthen the telehealth services, an automatic self-focusing microscope with different field image collection mechanism is required. In this work, the conversion of a compound microscope into a complete digital self-focusing automatic microscope, with intelligent field image collection mechanism, is discussed. This method uses passive autofocusing technique. In this method, most informative regions are identified on the basis of texture information. Features from these identified regions are used for autofocusing the microscope. This system is capable of collecting multiple snaps from different regions of the smear sample slides. The problem with the smear slide is that it has un-uniform thickness upon the glass slide. So some region has a very thick layer and some region has a very thin layer. In general, both of these regions are not considered for pathological analysis. The proposed system is capable to detect the region of smear slide which is suitable for collection of snap images. A soft computing approach is used to detect the desired regions of the sample in the slide. The Raspberry pi is used to design the control section. Multi-threaded parallel programming is used to optimize I/O execution and waiting time. The performance of the proposed system is satisfactory. The average peak signal-to-noise ratio (PSNR) is about 33 in comparison with manual focusing by the domain expert. The performance of the system in terms of computation time, which is calculated on the benchmark microscopic image dataset, is better than other learning-based methods. Autofocusing of pathological microscope with an intelligent field image collection mechanism is highly useful in the remote healthcare domain. This work basically describes a mechanism to migrate the conventional compound microscope into a tale-health service compatible (IoT enabled) microscope. This system is highly suitable for developing countries where an overall change of existing infrastructure is difficult due to economic reasons.


Subject(s)
Image Processing, Computer-Assisted , Microscopy , Humans , Software , Sputum
4.
IEEE Trans Pattern Anal Mach Intell ; 43(2): 595-607, 2021 Feb.
Article in English | MEDLINE | ID: mdl-31380743

ABSTRACT

This paper presents a novel local image descriptor called Pattern of Local Gravitational Force (PLGF). It is inspired by Law of Universal Gravitation. PLGF is a hybrid descriptor, which is a combination of two feature components: one is the Pattern of Local Gravitational Force Magnitude (PLGFM), and another is Pattern of Local Gravitational Force Angle (PLGFA). PLGFM encodes the local gravitational force magnitude, and PLGFA encodes the local gravitational force angle that the center pixel exerts on all other pixels within a local neighborhood. We propose a novel noise resistance and the edge-preserving binary pattern called neighbors to center difference binary pattern (NCDBP) for gravitational force magnitude encoding. Finally, the histograms of the two components are concatenated to construct the PLGF descriptor. Experimental results on the existing face recognition databases, texture database, and biomedical image database show that PLGF is an effective image descriptor, and it outperforms other widely used existing descriptors. Even if in complicated variations like noise, and illumination with smaller databases, a combination of PLGF and convolutional neural network (CNN) performs consistently better than other state-of-the-art techniques.

5.
Biochem Cell Biol ; 99(2): 261-271, 2021 04.
Article in English | MEDLINE | ID: mdl-32905704

ABSTRACT

Mitotic catastrophe is a common mode of tumor cell death. Cancer cells with a defective cell-cycle checkpoint often enter mitosis with damaged or under replicated chromosomes following genotoxic treatment. Premature condensation of the under-replicated (or damaged) chromosomes results in double-stranded DNA breaks at the centromere (centromere fragmentation). Centromere fragmentation is a morphological marker of mitotic catastrophe and is distinguished by the clustering of centromeres away from the chromosomes. We present an automated 2-step system for segmentation of cells exhibiting centromere fragmentation. The first step segments individual cells from clumps. We added two new terms, weighted local repelling term (WLRt) and weighted gradient term (WGt), in the energy functional of the traditional Chan-Vese based level set method. WLRt was used to generate a repelling force when contours of adjacent cells merged and then penalized the overlap. WGt enhances gradients between overlapping cells. The second step consists of a new algorithm, SBaN (shape-based analysis of each nucleus), which extracts features like circularity, major-axis length, minor-axis length, area, and eccentricity from each chromosome to identify cells with centromere fragmentation. The performance of SBaN algorithm for centromere fragmentation detection was statistically evaluated and the results were robust.


Subject(s)
Automation , Centromere/genetics , Mitosis/genetics , Algorithms , Centromere/metabolism , Centromere/pathology , HeLa Cells , Humans , Tumor Cells, Cultured
6.
Comput Biol Chem ; 84: 107152, 2020 Feb.
Article in English | MEDLINE | ID: mdl-31785969

ABSTRACT

microRNAs (miRNAs) are short, non-coding, endogenous RNA molecule that regulates messenger RNAs (mRNAs) at the post-transcriptional level. The discovery of this regulatory relationship between miRNAs and mRNAs is an important research direction. In this regard, our method proposed an integrated approach to identify the mRNA targets of dysregulated miRNAs using next-generation sequencing data from six cancer types. For this analysis, a sensible combination of data mining tools is chosen. In particular, Random Forest, log-transformed Fold change, and Pearson correlation coefficient are considered to find the potential miRNA-mRNA pairs. During this study, we have identified six cancer-specific overlapping sets of miRNAs whose classification accuracy is always higher than 91%. Furthermore, a promising correlation signature of significantly dysregulated miRNAs and mRNAs are recognized. A comprehensive analysis found that the cumulative percentage of negative correlation coefficients is higher than its positive counterpart. Moreover, experimentally validated miRNA-target interactions databases called miRTarBase is used to validate significantly correlated mRNAs. According to our study, the smallest set of significantly dysregulated miRNAs is 43 in PRAD data, while for mRNAs the smallest set is 238 in the LUAD cancer type. The obtained miRNA-mRNA pairs are subjected to do pathway enrichment analysis and gene ontology analysis. Regulatory roles of these dysregulated miRNAs with associated diseases are identified by constructing a regulatory network between miRNAs and associated diseases. Moreover, the relation between miRNAs expression level and patient survival is also analyzed. To conclude, the miRNA-mRNA pairs identified in this study may serve as promising candidates for subsequent in-vitro validation.


Subject(s)
Carcinoma/genetics , High-Throughput Nucleotide Sequencing/statistics & numerical data , MicroRNAs/genetics , Neoplasms/genetics , RNA, Messenger/genetics , Gene Expression Profiling , Gene Expression Regulation, Neoplastic , Gene Ontology , Humans
7.
Australas Phys Eng Sci Med ; 42(2): 647-657, 2019 Jun.
Article in English | MEDLINE | ID: mdl-30953251

ABSTRACT

Methodologies reported in the existing literature for identification of a region of interest (ROI) in medical thermograms suffer from over- and under-extraction of the abnormal and/or inflammatory region, thereby causing inaccurate diagnoses of the spread of an abnormality. We overcome this limitation by exploiting the advantages of a logarithmic transformation. Our algorithm extends the conventional region growing segmentation technique with a modified similarity criteria and a stopping rule. In this method, the ROI is generated by taking common information from two independent regions produced by two different versions of a region-growing algorithm that use different parameters. An automatic multi-seed selection procedure prevents missed segmentations in the proposed approach. We validate our technique by experimentation on various thermal images of the inflammation of affected knees and abnormal breasts. The images were obtained from three databases, namely the Knee joint dataset, the DBT-TU-JU dataset, and the DMR-IR dataset. The superiority of the proposed technique is established by comparison to the performance of state-of-the-art competing methodologies. This study performed temperature emitted inflammatory area segmentation on thermal images of knees and breasts. The proposed segmentation method is of potential value in thermal image processing applications that require expediency and automation.


Subject(s)
Image Processing, Computer-Assisted , Inflammation/diagnostic imaging , Temperature , Algorithms , Breast/diagnostic imaging , Color , Databases as Topic , Entropy , Female , Humans , Knee/diagnostic imaging
8.
Genes Genomics ; 41(12): 1371-1382, 2019 12.
Article in English | MEDLINE | ID: mdl-31004329

ABSTRACT

BACKGROUND: Recent advancement in bioinformatics offers the ability to identify informative genes from high dimensional gene expression data. Selection of informative genes from these large datasets has emerged as an issue of major concern among researchers. OBJECTIVE: Gene functionality and regulatory mechanisms can be understood through the analysis of these gene expression data. Here, we present a computational method to identify informative genes for breast cancer subtypes such as Basal, human epidermal growth factor receptor 2 (Her2), luminal A (LumA), and luminal B (LumB). METHODS: The proposed In Silico Markers method is a wrapper feature selection method based on Least Absolute Shrinkage and Selection Operator (LASSO), Covariance Matrix Adaptation Evolution Strategy (CMA-ES) and Support Vector Machine (SVM) as a classifier. Moreover, the composite measure consisting of relevance, redundancy, and rank score of frequently appeared genes are used to select informative genes. RESULTS: The informative genes are validated by statistical and biologically relevant criteria. For a comparative evaluation of the proposed approach, biological similarity score designed on semantic similarity measure of GO terms are investigated. Further, the proposed technique is evaluated with 7 existing gene selection techniques using two-class annotated breast cancer subtype datasets. CONCLUSION: The utilization of this method can bring about the discovery of informative genes. Furthermore, under multiple criteria decision-making set-up, informative genes selected by the In Silico Markers are found to be admirable than the compared methods selected genes.


Subject(s)
Breast Neoplasms/genetics , Algorithms , Biological Evolution , Biomarkers, Tumor/genetics , Breast Neoplasms/classification , Computational Biology/methods , Computer Simulation , Data Interpretation, Statistical , Female , Gene Ontology , Genes, Neoplasm , Humans , Receptor, ErbB-2/genetics
9.
IEEE Trans Med Imaging ; 38(2): 572-584, 2019 02.
Article in English | MEDLINE | ID: mdl-30176582

ABSTRACT

Segmentation of suspicious regions (SRs) of a thermal breast image (TBI) is a very significant and challenging problem for the identification of breast cancer. Therefore, in this work, we have proposed an active contour model for the segmentation of the SRs in TBI. The proposed segmentation method combines three significant steps. First, a novel method, called smaller-peaks corresponding to the high-intensity-pixels and the centroid-knowledge of SRs (SCH-CS), is proposed to approximately locate the SRs, whose contours are later used as the initial evolving curves of the level set method (LSM). Second, a new energy functional, called different local priorities embedded (DLPE), is proposed regarding the level set function. DLPE is then minimized using the interleaved level set evolution to segment the potential SRs in TBI more accurately. Finally, a new stopping criterion is incorporated into the proposed LSM. The proposed LSM not only increases the segmentation speed but also ameliorates the segmentation accuracy. The performance of our SR segmentation method was evaluated on two TBI databases, namely, DMR-IR and DBT-TU-JU, and the average segmentation accuracies obtained on these databases are 72.18% and 71.26% respectively, which are better than the other state-of-the-art methods. Beside this, a novel framework to analyze TBIs is proposed for differentiating abnormal and normal breasts on the basis of the segmented SRs. We have also shown experimentally that investigating only the SRs instead of the whole breast is more effective in differentiating abnormal and normal breasts.


Subject(s)
Breast/diagnostic imaging , Image Processing, Computer-Assisted/methods , Thermography/methods , Algorithms , Breast Neoplasms/diagnostic imaging , Databases, Factual , Female , Humans
10.
Genes Genomics ; 41(4): 431-443, 2019 04.
Article in English | MEDLINE | ID: mdl-30535858

ABSTRACT

BACKGROUND: Identification of differentially expressed genes, i.e., genes whose transcript abundance level differs across different biological or physiological conditions, was indeed a challenging task. However, the inception of transcriptome sequencing (RNA-seq) technology revolutionized the simultaneous measurement of the transcript abundance levels for thousands of genes. OBJECTIVE: In this paper, such next-generation sequencing (NGS) data is used to identify biomarker signatures for several of the most common cancer types (bladder, colon, kidney, brain, liver, lung, prostate, skin, and thyroid) METHODS: Here, the problem is mapped into the comparison of optimization algorithms for selecting a set of genes that lead to the highest classification accuracy of a two-class classification task between healthy and tumor samples. As the optimization algorithms Artificial Bee Colony (ABC), Ant Colony Optimization, Differential Evolution, and Particle Swarm Optimization are chosen for this experiment. A standard statistical method called DESeq2 is used to select differentially expressed genes before being feed to the optimization algorithms. Classification of healthy and tumor samples is done by support vector machine RESULTS: Cancer-specific validation yields remarkably good results in terms of accuracy. Highest classification accuracy is achieved by the ABC algorithm for Brain lower grade glioma data is 99.10%. This validation is well supported by a statistical test, gene ontology enrichment analysis, and KEGG pathway enrichment analysis for each cancer biomarker signature CONCLUSION: The current study identified robust genes as biomarker signatures and these identified biomarkers might be helpful to accurately identify tumors of unknown origin.


Subject(s)
Biomarkers, Tumor/genetics , Gene Expression Regulation, Neoplastic , Machine Learning , Biomarkers, Tumor/metabolism , Humans , Organ Specificity , Transcriptome
11.
Comput Med Imaging Graph ; 71: 90-103, 2019 01.
Article in English | MEDLINE | ID: mdl-30594745

ABSTRACT

In this work, we proposed a patch-based classifier (PBC) using Convolutional neural network (CNN) for automatic classification of histopathological breast images. Presence of limited images necessitated extraction of patches and augmentation to boost the number of training samples. Thus patches of suitable sizes carrying crucial diagnostic information were extracted from the original images. The proposed classification system works in two different modes: one patch in one decision (OPOD) and all patches in one decision (APOD). The proposed PBC first predicts the class label of each patch by OPOD mode. If that class label is the same for all the extracted patches and that is the class label of that image, then the output is considered as correct classification. In another mode that is APOD, the class label of each extracted patch is extracted as done in OPOD and a majority voting scheme takes the final decision about class label of the image. We have used ICIAR 2018 breast histology image dataset for this work which comprises of 4 different classes namely normal, benign, in situ and invasive carcinoma. Experimental results show that our proposed OPOD mode achieved a patch-wise classification accuracy of 77.4% for 4 and 84.7% for 2 histopathological classes respectively on the test set obtained by splitting the training dataset. Also, our proposed APOD technique achieved image-wise classification accuracy of 90% for 4-class and 92.5% for 2-class classification respectively on the split test set. Further, we have achieved accuracy of 87% on the hidden test dataset of ICIAR-2018.


Subject(s)
Breast Neoplasms/diagnostic imaging , Breast Neoplasms/pathology , Deep Learning , Image Processing, Computer-Assisted/methods , Diagnosis, Differential , Female , Humans
12.
Australas Phys Eng Sci Med ; 41(4): 861-879, 2018 Dec.
Article in English | MEDLINE | ID: mdl-30171500

ABSTRACT

The purpose of this study is to develop a novel breast abnormality detection system by utilizing the potential of infrared breast thermography (IBT) in early breast abnormality detection. Since the temperature distributions are different in normal and abnormal thermograms and hot thermal patches are visible in abnormal thermograms, the abnormal thermograms possess more complex information than the normal thermograms. Here, the proposed method exploits the presence of hot thermal patches and vascular changes by using the power law transformation for pre-processing and singular value decomposition to characterize the thermal patches. The extracted singular values are found to be statistically significant (p < 0.001) in breast abnormality detection. The discriminability of the singular values is evaluated by using seven different classifiers incorporating tenfold cross-validations, where the thermograms of the Department of Biotechnology-Tripura University-Jadavpur University (DBT-TU-JU) and Database of Mastology Research (DMR) databases are used. In DMR database, the highest classification accuracy of 98.00% with the area under the ROC curve (AUC) of 0.9862 is achieved with the support vector machine using polynomial kernel. The same for the DBT-TU-JU database is 92.50% with AUC of 0.9680 using the same classifier. The comparison of the proposed method with the other reported methods concludes that the proposed method outperforms the other existing methods as well as other traditional feature sets used in IBT based breast abnormality detection. Moreover, by using Rank1 and Rank2 singular values, a breast abnormality grading (BAG) index has also been developed for grading the thermograms based on their degree of abnormality.


Subject(s)
Breast Neoplasms/diagnostic imaging , Breast/diagnostic imaging , Image Interpretation, Computer-Assisted/methods , Thermography/methods , Adult , Aged , Aged, 80 and over , Area Under Curve , Early Detection of Cancer/methods , Female , Humans , Middle Aged , Support Vector Machine , Young Adult
13.
PLoS One ; 13(7): e0200353, 2018.
Article in English | MEDLINE | ID: mdl-30048452

ABSTRACT

MicroRNAs are small non-coding RNAs that influence gene expression by binding to the 3' UTR of target mRNAs in order to repress protein synthesis. Soon after discovery, microRNA dysregulation has been associated to several pathologies. In particular, they have often been reported as differentially expressed in healthy and tumor samples. This fact suggested that microRNAs are likely to be good candidate biomarkers for cancer diagnosis and personalized medicine. With the advent of Next-Generation Sequencing (NGS), measuring the expression level of the whole miRNAome at once is now routine. Yet, the collaborative effort of sharing data opens to the possibility of population analyses. This context motivated us to perform an in-silico study to distill cancer-specific panels of microRNAs that can serve as biomarkers. We observed that the problem of finding biomarkers can be modeled as a two-class classification task where, given the miRNAomes of a population of healthy and cancerous samples, we want to find the subset of microRNAs that leads to the highest classification accuracy. We fulfill this task leveraging on a sensible combination of data mining tools. In particular, we used: differential evolution for candidate selection, component analysis to preserve the relationships among miRNAs, and SVM for sample classification. We identified 10 cancer-specific panels whose classification accuracy is always higher than 92%. These panels have a very little overlap suggesting that miRNAs are not only predictive of the onset of cancer, but can be used for classification purposes as well. We experimentally validated the contribution of each of the employed tools to the selection of discriminating miRNAs. Moreover, we tested the significance of each panel for the corresponding cancer type. In particular, enrichment analysis showed that the selected miRNAs are involved in oncogenesis pathways, while survival analysis proved that miRNAs can be used to evaluate cancer severity. Summarizing: results demonstrated that our method is able to produce cancer-specific panels that are promising candidates for a subsequent in vitro validation.


Subject(s)
Early Detection of Cancer , High-Throughput Nucleotide Sequencing , MicroRNAs/genetics , Neoplasms/genetics , Biomarkers, Tumor/genetics , Biomarkers, Tumor/metabolism , Data Mining , Early Detection of Cancer/methods , Humans , MicroRNAs/metabolism , Neoplasms/classification , Neoplasms/metabolism , Support Vector Machine
14.
IEEE J Biomed Health Inform ; 22(4): 1238-1249, 2018 07.
Article in English | MEDLINE | ID: mdl-28829321

ABSTRACT

The advancement of research in a specific area of clinical diagnosis crucially depends on the availability and quality of the radiology and other test related databases accompanied by ground truth and additional necessary medical findings. This paper describes the creation of the Department of Biotechnology-Tripura University-Jadavpur University (DBT-TU-JU) breast thermogram database. The objective of creating the DBT-TU-JU database is to provide a breast thermogram database that is annotated with the ground-truth images of the suspicious regions. Along with the result of breast thermography, the database comprises of the results of other breast imaging methodologies. A standard breast thermogram acquisition protocol suite comprising of several critical factors has been designed for the collection of breast thermograms. Currently, the DBT-TU-JU database contains 1100 breast thermograms of 100 subjects. Due to the necessity of evaluating any breast abnormality detection system, this study emphasizes the generation of the ground-truth images of the hotspot areas, whose presence in a breast thermogram signifies the presence of breast abnormality. With the generated ground-truth images, we compared the results of six state-of-the-art image segmentation methods using five supervised evaluation metrics to identify the proficient segmentation methods for hotspot extraction. Based on the evaluation results, the fractional-order Darwinian particle swarm optimization, region growing, mean shift, and fuzzy c-means clustering are found to be more efficient in comparison to k-means clustering and threshold-based segmentation methods.


Subject(s)
Breast Neoplasms/diagnostic imaging , Breast/diagnostic imaging , Databases, Factual , Image Interpretation, Computer-Assisted/methods , Thermography/methods , Adult , Aged , Aged, 80 and over , Female , Humans , Middle Aged , Young Adult
15.
Article in English | MEDLINE | ID: mdl-29078042

ABSTRACT

New image fusion rules for multimodal medical images are proposed in this work. Image fusion rules are defined by random forest learning algorithm and a translation-invariant à-trous wavelet transform (AWT). The proposed method is threefold. First, source images are decomposed into approximation and detail coefficients using AWT. Second, random forest is used to choose pixels from the approximation and detail coefficients for forming the approximation and detail coefficients of the fused image. Lastly, inverse AWT is applied to reconstruct fused image. All experiments have been performed on 198 slices of both computed tomography and positron emission tomography images of a patient. A traditional fusion method based on Mallat wavelet transform has also been implemented on these slices. A new image fusion performance measure along with 4 existing measures has been presented, which helps to compare the performance of 2 pixel level fusion methods. The experimental results clearly indicate that the proposed method outperforms the traditional method in terms of visual and quantitative qualities and the new measure is meaningful.


Subject(s)
Positron Emission Tomography Computed Tomography/methods , Wavelet Analysis , Algorithms , Humans , Tomography, X-Ray Computed
16.
J Healthc Inform Res ; 1(2): 231-259, 2017 Dec.
Article in English | MEDLINE | ID: mdl-35415396

ABSTRACT

Malaria spreads rapidly in a particular time of the year, and it becomes impossible to arrange sufficient number of pathologists and physician at that time, especially in remote places of the developing nations. Thus, low-cost pathological equipment, which can automatically identify and classify the type of malarial parasites from the microscopic images of blood samples, will be of great help for diagnosis and treatment of malaria. The proposed system detects malarial parasites from the microscopic images of blood samples and also categorizes them based on shape, size and texture. To capture different field images of the same sample, a fully automatic slide movement system is devised to control the slide movement under the "objective lens" of the microscope. The sensitivity and specificity of the system are found to be 91.42 and 87.36% respectively. The system has the potential to a powerful supporting tool for telemedicine with very simple operational instructions.

17.
J Chem Inf Model ; 55(7): 1469-82, 2015 Jul 27.
Article in English | MEDLINE | ID: mdl-26079845

ABSTRACT

The Cyclin-Dependent Kinases (CDKs) are the core components coordinating eukaryotic cell division cycle. Generally the crystal structure of CDKs provides information on possible molecular mechanisms of ligand binding. However, reliable and robust estimation of ligand binding activity has been a challenging task in drug design. In this regard, various machine learning techniques, such as Support Vector Machine, Naive Bayesian classifier, Decision Tree, and K-Nearest Neighbor classifier, have been used. The performance of these heterogeneous classification techniques depends on proper selection of features from the data set. This fact motivated us to propose an integrated classification technique using Genetic Algorithm (GA), Rotational Feature Selection (RFS) scheme, and Ensemble of Machine Learning methods, named as the Genetic Algorithm integrated Rotational Ensemble based classification technique, for the prediction of ligand binding activity of CDKs. This technique can automatically find the important features and the ensemble size. For this purpose, GA encodes the features and ensemble size in a chromosome as a binary string. Such encoded features are then used to create diverse sets of training points using RFS in order to train the machine learning method multiple times. The RFS scheme works on Principal Component Analysis (PCA) to preserve the variability information of the rotational nonoverlapping subsets of original data. Thereafter, the testing points are fed to the different instances of trained machine learning method in order to produce the ensemble result. Here accuracy is computed as a final result after 10-fold cross validation, which also used as an objective function for GA to maximize. The effectiveness of the proposed classification technique has been demonstrated quantitatively and visually in comparison with different machine learning methods for 16 ligand binding CDK docking and rescoring data sets. In addition, the best possible features have been reported for CDK docking and rescoring data sets separately. Finally, the Friedman test has been conducted to judge the statistical significance of the results produced by the proposed technique. The results indicate that the integrated classification technique has high relevance in predicting of protein-ligand binding activity.


Subject(s)
Cyclin-Dependent Kinases/antagonists & inhibitors , Cyclin-Dependent Kinases/metabolism , Machine Learning , Protein Kinase Inhibitors/metabolism , Protein Kinase Inhibitors/pharmacology , Algorithms , Bayes Theorem , Chromosomes/genetics , Cyclin-Dependent Kinases/chemistry , Decision Trees , Models, Molecular , Protein Binding , Protein Conformation , Support Vector Machine
18.
Comput Intell Neurosci ; 2012: 261089, 2012.
Article in English | MEDLINE | ID: mdl-22924035

ABSTRACT

Thermal infrared (IR) images focus on changes of temperature distribution on facial muscles and blood vessels. These temperature changes can be regarded as texture features of images. A comparative study of face two recognition methods working in thermal spectrum is carried out in this paper. In the first approach, the training images and the test images are processed with Haar wavelet transform and the LL band and the average of LH/HL/HH bands subimages are created for each face image. Then a total confidence matrix is formed for each face image by taking a weighted sum of the corresponding pixel values of the LL band and average band. For LBP feature extraction, each of the face images in training and test datasets is divided into 161 numbers of subimages, each of size 8 × 8 pixels. For each such subimages, LBP features are extracted which are concatenated in manner. PCA is performed separately on the individual feature set for dimensionality reduction. Finally, two different classifiers namely multilayer feed forward neural network and minimum distance classifier are used to classify face images. The experiments have been performed on the database created at our own laboratory and Terravic Facial IR Database.


Subject(s)
Image Interpretation, Computer-Assisted/methods , Pattern Recognition, Automated/methods , Wavelet Analysis , Algorithms , Body Temperature , Databases, Factual , Face , Humans , Image Enhancement/methods
19.
Comput Intell Neurosci ; 2012: 421032, 2012.
Article in English | MEDLINE | ID: mdl-23365559

ABSTRACT

In this paper a nonlinear Gabor Wavelet Transform (GWT) discriminant feature extraction approach for enhanced face recognition is proposed. Firstly, the low-energized blocks from Gabor wavelet transformed images are extracted. Secondly, the nonlinear discriminating features are analyzed and extracted from the selected low-energized blocks by the generalized Kernel Discriminative Common Vector (KDCV) method. The KDCV method is extended to include cosine kernel function in the discriminating method. The KDCV with the cosine kernels is then applied on the extracted low-energized discriminating feature vectors to obtain the real component of a complex quantity for face recognition. In order to derive positive kernel discriminative vectors, we apply only those kernel discriminative eigenvectors that are associated with nonzero eigenvalues. The feasibility of the low-energized Gabor-block-based generalized KDCV method with cosine kernel function models has been successfully tested for classification using the L(1), L(2) distance measures; and the cosine similarity measure on both frontal and pose-angled face recognition. Experimental results on the FRAV2D and the FERET database demonstrate the effectiveness of this new approach.


Subject(s)
Discrimination, Psychological/physiology , Face , Pattern Recognition, Visual/physiology , Recognition, Psychology/physiology , Support Vector Machine , Algorithms , Databases as Topic/statistics & numerical data , Humans , Models, Theoretical , Photic Stimulation , Principal Component Analysis , Sensitivity and Specificity
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