Statistical methods for tissue array images - algorithmic scoring and co-training

Recent advances in tissue microarray technology have allowed immunohistochemistry to become a powerful medium-to-high throughput analysis tool, particularly for the validation of diagnostic and prognostic biomarkers. However, as study size grows, the manual evaluation of these assays becomes a prohibitive limitation; it vastly reduces throughput and greatly increases variability and expense. We propose an algorithm - Tissue Array Co-Occurrence Matrix Analysis (TACOMA) - for quantifying cellular phenotypes based on textural regularity summarized by local inter-pixel relationships. The algorithm can be easily trained for any staining pattern, is absent of sensitive tuning parameters and has the ability to report salient pixels in an image that contribute to its score. Pathologists' input via informative training patches is an important aspect of the algorithm that allows the training for any specific marker or cell type. With co-training, the error rate of TACOMA can be reduced substantially for a very small training sample (e.g., with size 30). We give theoretical insights into the success of co-training via thinning of the feature set in a high-dimensional setting when there is "sufficient" redundancy among the features. TACOMA is flexible, transparent and provides a scoring process that can be evaluated with clarity and confidence. In a study based on an estrogen receptor (ER) marker, we show that TACOMA is comparable to, or outperforms, pathologists' performance in terms of accuracy and repeatability.Comment: Published in at http://dx.doi.org/10.1214/12-AOAS543 the Annals of Applied Statistics (http://www.imstat.org/aoas/) by the Institute of Mathematical Statistics (http://www.imstat.org

Blind Image Quality Assessment for Face Pose Problem

No-Reference image quality assessment for face images is of high interest since it can be required for biometric systems such as biometric passport applications to increase system performance. This can be achieved by controlling the quality of biometric sample images during enrollment. This paper proposes a novel no-reference image quality assessment method that extracts several image features and uses data mining techniques for detecting the pose variation problem in facial images. Using subsets from three public 2D face databases PUT, ENSIB, and AR, the experimental results recorded a promising accuracy of 97.06% when using the RandomForest Classifier, which outperforms other classifier

Standardized radiomics analysis of clinical myocardial perfusion stress SPECT images to identify coronary artery calcification

PURPOSE: Myocardial perfusion (MP) stress single-photon emission computed tomography (SPECT) is an established diagnostic test for patients suspected of coronary artery disease (CAD). Meanwhile, coronary artery calcification (CAC) scoring obtained from diagnostic CT is a highly sensitive test, offering incremental diagnostic information in identifying patients with significant CAD yet normal MP stress SPECT (MPSS) scans. However, after decades of wide utilization of MPSS, CAC is not commonly reimbursed (e.g. by the CMS), nor widely deployed in community settings. We studied the potential of complementary information deduced from the radiomics analysis of normal MPSS scans in predicting the CAC score. METHODS: We collected data from 428 patients with normal (non-ischemic) MPSS ( RESULTS: Unsupervised feature selection significantly reduced 8×487 features to 56. In univariate analysis, no feature survived the false-discovery rate (FDR) to directly correlate with CAC scores. Applying Fisher\u27s method to the multivariate regression results demonstrated combining radiomics with the clinical features to enhance the significance of the prediction model across all cardiac segments. Conclusions: Our standardized and statistically robust multivariate analysis demonstrated significant prediction of the CAC score for all cardiac segments when combining MPSS radiomic features with clinical features, suggesting radiomics analysis can add diagnostic or prognostic value to standard MPSS for wide clinical usage

Quantitative Screening of Cervical Cancers for Low-Resource Settings: Pilot Study of Smartphone-Based Endoscopic Visual Inspection After Acetic Acid Using Machine Learning Techniques

Background: Approximately 90% of global cervical cancer (CC) is mostly found in low- and middle-income countries. In most cases, CC can be detected early through routine screening programs, including a cytology-based test. However, it is logistically difficult to offer this program in low-resource settings due to limited resources and infrastructure, and few trained experts. A visual inspection following the application of acetic acid (VIA) has been widely promoted and is routinely recommended as a viable form of CC screening in resource-constrained countries. Digital images of the cervix have been acquired during VIA procedure with better quality assurance and visualization, leading to higher diagnostic accuracy and reduction of the variability of detection rate. However, a colposcope is bulky, expensive, electricity-dependent, and needs routine maintenance, and to confirm the grade of abnormality through its images, a specialist must be present. Recently, smartphone-based imaging systems have made a significant impact on the practice of medicine by offering a cost-effective, rapid, and noninvasive method of evaluation. Furthermore, computer-aided analyses, including image processing-based methods and machine learning techniques, have also shown great potential for a high impact on medicinal evaluations

Super-resolution assessment and detection

Super Resolution (SR) techniques are powerful digital manipulation tools that have significantly impacted various industries due to their ability to enhance the resolution of lower quality images and videos. Yet, the real-world adaptation of SR models poses numerous challenges, which blind SR models aim to overcome by emulating complex real-world degradations. In this thesis, we investigate these SR techniques, with a particular focus on comparing the performance of blind models to their non-blind counterparts under various conditions. Despite recent progress, the proliferation of SR techniques raises concerns about their potential misuse. These methods can easily manipulate real digital content and create misrepresentations, which highlights the need for robust SR detection mechanisms. In our study, we analyze the limitations of current SR detection techniques and propose a new detection system that exhibits higher performance in discerning real and upscaled videos. Moreover, we conduct several experiments to gain insights into the strengths and weaknesses of the detection models, providing a better understanding of their behavior and limitations. Particularly, we target 4K videos, which are rapidly becoming the standard resolution in various fields such as streaming services, gaming, and content creation. As part of our research, we have created and utilized a unique dataset in 4K resolution, specifically designed to facilitate the investigation of SR techniques and their detection

Signal processing algorithms for enhanced image fusion performance and assessment

The dissertation presents several signal processing algorithms for image fusion in noisy multimodal conditions. It introduces a novel image fusion method which performs well for image sets heavily corrupted by noise. As opposed to current image fusion schemes, the method has no requirements for a priori knowledge of the noise component. The image is decomposed with Chebyshev polynomials (CP) being used as basis functions to perform fusion at feature level. The properties of CP, namely fast convergence and smooth approximation, renders it ideal for heuristic and indiscriminate denoising fusion tasks. Quantitative evaluation using objective fusion assessment methods show favourable performance of the proposed scheme compared to previous efforts on image fusion, notably in heavily corrupted images. The approach is further improved by incorporating the advantages of CP with a state-of-the-art fusion technique named independent component analysis (ICA), for joint-fusion processing based on region saliency. Whilst CP fusion is robust under severe noise conditions, it is prone to eliminating high frequency information of the images involved, thereby limiting image sharpness. Fusion using ICA, on the other hand, performs well in transferring edges and other salient features of the input images into the composite output. The combination of both methods, coupled with several mathematical morphological operations in an algorithm fusion framework, is considered a viable solution. Again, according to the quantitative metrics the results of our proposed approach are very encouraging as far as joint fusion and denoising are concerned. Another focus of this dissertation is on a novel metric for image fusion evaluation that is based on texture. The conservation of background textural details is considered important in many fusion applications as they help define the image depth and structure, which may prove crucial in many surveillance and remote sensing applications. Our work aims to evaluate the performance of image fusion algorithms based on their ability to retain textural details from the fusion process. This is done by utilising the gray-level co-occurrence matrix (GLCM) model to extract second-order statistical features for the derivation of an image textural measure, which is then used to replace the edge-based calculations in an objective-based fusion metric. Performance evaluation on established fusion methods verifies that the proposed metric is viable, especially for multimodal scenarios

Computer-assisted liver graft steatosis assessment via learning-based texture analysis

none12siopenMoccia, Sara; Mattos, Leonardo S.; Patrini, Ilaria; Ruperti, Michela; Poté, Nicolas; Dondero, Federica; Cauchy, François; Sepulveda, Ailton; Soubrane, Olivier; De Momi, Elena; Diaspro, Alberto; Cesaretti, ManuelaMoccia, Sara; Mattos, Leonardo S.; Patrini, Ilaria; Ruperti, Michela; Poté, Nicolas; Dondero, Federica; Cauchy, François; Sepulveda, Ailton; Soubrane, Olivier; De Momi, Elena; Diaspro, Alberto; Cesaretti, Manuel

Water immersion vs. air insufflation in canine duodenal endoscopy: is the future underwater?

Endoscopy represents a commonly employed technique for canine enteropathies. Different trials in human intestinal endoscopy have suggested that the introduction of water for luminal distension, in place of air, improves the visualization of the mucosal texture and decreases pain. The aim of the study was to compare water immersion (WI) vs. air insufflation (AI) during duodenoscopy in anesthetized dogs in terms of mucosal visualization and nociception. Twenty-five dogs undergoing duodenoscopy were included. The same image of the descending duodenum was recorded applying WI and AI. Each pair of images was analyzed using morphological skeletonization, an image entropy evaluation, and a subjective blind evaluation by three experienced endoscopists. To evaluate differences in nociception related to the procedure applied, heart rate and arterial blood pressure were measured before, during and after WI/AI. To compare the two methods, a t-test for paired data was applied for the image analysis, Fleiss\u2019 Kappa evaluation for the subjective evaluation and a Friedman test for anesthetic parameters. No differences were found between WI and AI using morphological skeletonization and entropy. The subjective evaluation identified the WI images as qualitatively better than the AI images, indicating substantial agreement between the operators. No differences in nociception were found. The results of the study pointed out the absence of changes in pain response between WI and AI, likely due to the sufficient control of nociception by the anesthesia. Based on subjective evaluation, but not confirmed by the image analysis, WI provided better image quality than AI

Computer-assisted liver graft steatosis assessment via learning-based texture analysis

Purpose: Fast and accurate graft hepatic steatosis (HS) assessment is of primary importance for lowering liver dysfunction risks after transplantation. Histopathological analysis of biopsied liver is the gold standard for assessing HS, despite being invasive and time consuming. Due to the short time availability between liver procurement and transplantation, surgeons perform HS assessment through clinical evaluation (medical history, blood tests) and liver texture visual analysis. Despite visual analysis being recognized as challenging in the clinical literature, few efforts have been invested to develop computer-assisted solutions for HS assessment. The objective of this paper is to investigate the automatic analysis of liver texture with machine learning algorithms to automate the HS assessment process and offer support for the surgeon decision process. Methods: Forty RGB images of forty different donors were analyzed. The images were captured with an RGB smartphone camera in the operating room (OR). Twenty images refer to livers that were accepted and 20 to discarded livers. Fifteen randomly selected liver patches were extracted from each image. Patch size was 100 × 100. This way, a balanced dataset of 600 patches was obtained. Intensity-based features (INT), histogram of local binary pattern (HLBPriu2), and gray-level co-occurrence matrix (FGLCM) were investigated. Blood-sample features (Blo) were included in the analysis, too. Supervised and semisupervised learning approaches were investigated for feature classification. The leave-one-patient-out cross-validation was performed to estimate the classification performance. Results: With the best-performing feature set (HLBPriu2+INT+Blo) and semisupervised learning, the achieved classification sensitivity, specificity, and accuracy were 95, 81, and 88%, respectively. Conclusions: This research represents the first attempt to use machine learning and automatic texture analysis of RGB images from ubiquitous smartphone cameras for the task of graft HS assessment. The results suggest that is a promising strategy to develop a fully automatic solution to assist surgeons in HS assessment inside the OR