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Search results for: cancer classification
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Deep Learning-Based, Multiclass Approach to Cancer Classification on Liquid Biopsy Data
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Deep Learning-Based, Multiclass Approach to Cancer Classification on Liquid Biopsy Data
PublicationThe field of cancer diagnostics has been revolutionized by liquid biopsies, which offer a bridge between laboratory research and clinical settings. These tests are less invasive than traditional biopsies and more convenient than routine imaging methods. Liquid biopsies allow studying of tumor-derived markers in bodily fluids, enabling the development of more precise cancer diagnostic tests for screening, disease monitoring, and...
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Towards Cancer Patients Classification Using Liquid Biopsy
PublicationLiquid biopsy is a useful, minimally invasive diagnostic and monitoring tool for cancer disease. Yet, developing accurate methods, given the potentially large number of input features, and usually small datasets size remains very challenging. Recently, a novel feature parameterization based on the RNA-sequenced platelet data which uses the biological knowledge from the Kyoto Encyclopedia of Genes and Genomes, combined with a classifier...
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Interpretable deep learning approach for classification of breast cancer - a comparative analysis of multiple instance learning models
PublicationBreast cancer is the most frequent female cancer. Its early diagnosis increases the chances of a complete cure for the patient. Suitably designed deep learning algorithms can be an excellent tool for quick screening analysis and support radiologists and oncologists in diagnosing breast cancer.The design of a deep learning-based system for automated breast cancer diagnosis is not easy due to the lack of annotated data, especially...
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Molecular profiles of thyroid cancer subtypes: Classification based on features of tissue revealed by mass spectrometry imaging
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Improving platelet‐RNA‐based diagnostics: a comparative analysis of machine learning models for cancer detection and multiclass classification
PublicationLiquid biopsy demonstrates excellent potential in patient management by providing a minimally invasive and cost-effective approach to detecting and monitoring cancer, even at its early stages. Due to the complexity of liquid biopsy data, machine-learning techniques are increasingly gaining attention in sample analysis, especially for multidimensional data such as RNA expression profiles. Yet, there is no agreement in the community...
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Self-organizing maps classification of epidemiological data and toenail selenium content monitored on cancer and healthy patients from Poland
PublicationW pracy przedstawiono wyniki wielowymiarowej analizy danych pomiarowych (przy wykorzystaniu techniki samoorganizującej sie mapy (SOM))nad oszacowaniem zawartości selenu w próbkach paznokci pobranych od mieszkańców Województwa Pomorskiego ((w tym od grupy osób zdrowych i ze zdiagnozowaną chorobą nowotworową) i Lubuskiego. W wyniku przeprowadzonej analizy uzyskano podział uczestników ze zdiagnozowanym nowotworem na trzy różne grupy:1...
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Optimizing of MALDI-ToF-based low-molecular-weight serum proteome pattern analysis in detection of breast cancer patients; the effect of albumin removal on classification performance.
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Predictions of cervical cancer identification by photonic method combined with machine learning
PublicationCervical cancer is one of the most commonly appearing cancers, which early diagnosis is of greatest importance. Unfortunately, many diagnoses are based on subjective opinions of doctors—to date, there is no general measurement method with a calibrated standard. The problem can be solved with the measurement system being a fusion of an optoelectronic sensor and machine learning algorithm to provide reliable assistance for doctors...
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Diagnostic Accuracy of Liquid Biopsy in Endometrial Cancer
PublicationBackground: Liquid biopsy is a minimally invasive collection of a patient body fluid sample. In oncology, they offer several advantages compared to traditional tissue biopsies. However, the potential of this method in endometrial cancer (EC) remains poorly explored. We studied the utility of tumor educated platelets (TEPs) and circulating tumor DNA (ctDNA) for preoperative EC diagnosis, including histology determination. Methods:...
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Attention-Based Deep Learning System for Classification of Breast Lesions—Multimodal, Weakly Supervised Approach
PublicationBreast cancer is the most frequent female cancer, with a considerable disease burden and high mortality. Early diagnosis with screening mammography might be facilitated by automated systems supported by deep learning artificial intelligence. We propose a model based on a weakly supervised Clustering-constrained Attention Multiple Instance Learning (CLAM) classifier able to train under data scarcity effectively. We used a private...
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Platelet RNA Sequencing Data Through the Lens of Machine Learning
PublicationLiquid biopsies offer minimally invasive diagnosis and monitoring of cancer disease. This biosource is often analyzed using sequencing, which generates highly complex data that can be used using machine learning tools. Nevertheless, validating the clinical applications of such methods is challenging. It requires: (a) using data from many patients; (b) verifying potential bias concerning sample collection; and (c) adding interpretability...
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Segmentation-Based BI-RADS ensemble classification of breast tumours in ultrasound images
PublicationBackground: The development of computer-aided diagnosis systems in breast cancer imaging is exponential. Since 2016, 81 papers have described the automated segmentation of breast lesions in ultrasound images using arti- ficial intelligence. However, only two papers have dealt with complex BI-RADS classifications. Purpose: This study addresses the automatic classification of breast lesions into binary classes (benign vs. ma- lignant)...
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Ultrasound and Clinical Preoperative Characteristics for Discrimination Between Ovarian Metastatic Colorectal Cancer and Primary Ovarian Cancer: A Case-Control Study
PublicationThe aim of this study was to describe the clinical and sonographic features of ovarian metastases originating from colorectal cancer (mCRC), and to discriminate mCRC from primary ovarian cancer (OC). We conducted a multi-institutional, retrospective study of consecutive patients with ovarian mCRC who had undergone ultrasound examination using the International Ovarian Tumor Analysis (IOTA) terminology, with the addition of evaluating...
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Melanoma skin cancer detection using mask-RCNN with modified GRU model
PublicationIntroduction: Melanoma Skin Cancer (MSC) is a type of cancer in the human body; therefore, early disease diagnosis is essential for reducing the mortality rate. However, dermoscopic image analysis poses challenges due to factors such as color illumination, light reflections, and the varying sizes and shapes of lesions. To overcome these challenges, an automated framework is proposed in this manuscript. Methods: Initially, dermoscopic...
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Selected Technical Issues of Deep Neural Networks for Image Classification Purposes
PublicationIn recent years, deep learning and especially Deep Neural Networks (DNN) have obtained amazing performance on a variety of problems, in particular in classification or pattern recognition. Among many kinds of DNNs, the Convolutional Neural Networks (CNN) are most commonly used. However, due to their complexity, there are many problems related but not limited to optimizing network parameters, avoiding overfitting and ensuring good...
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POTENCJALNE MOŻLIWOŚCI APLIKACJ TECHNIKI E-NOS W DIAGNOSTYCE MEDYCZNEJ=APPLICATION POTENTIALITIES OF E-NOSE TECHNIQUE IN MEDICAL DIAGNOSTICS
PublicationW pracy przedstawiono i omówiono zasadę działania instrumentu analitycznego - elektronicznego nosa (e-nos) zdolnego rozróżnić i sklasyfikować intensywność zapachu. Urządzenia te służą do automatycznej analizy i rozróżniania próbek zapachowych o złożonym składzie, do rozpoznawania ich charakterystycznych właściwości i najczęściej przeznaczone są do szybkiej analizy jakościowej. Dzięki unikatowym właściwościom technika ta znalazła...
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Efficiency comparison of selected endoscopic video analysis algorithms
PublicationIn the paper, selected image analysis algorithms were examined and compared in the task of identifying informative frames, blurry frames, colorectal cancer and healthy tissue on endoscopic videos. In order to standardize the tests, the algorithms were modified by removing from them parts responsible for the classification, and replacing them with Support Vector Machines and Artificial Neural Networks. The tests were performed in...
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Evaluation of Health Hazard Due to Emission of Volatile Organic Compounds from Various Processing Units of Wastewater Treatment Plant
PublicationThe paper describes an attempt at health risk assessment and odour concentration determination in the most important units of a wastewater treatment plant. The cancer risk (CR) and hazard index (HI) parameters in selected measurement locations were calculated based on the results of chromatographic analyses (GCxGC-TOF-MS) and the United States Environmental Protection Agency (US EPA) guidelines. No exceedance of the CR and HI acceptable...
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A procedure for the determination of dichloromethane and tetrachloroethene in water using pervaporation and gas chromatography
PublicationIn the present study, pervaporation was applied to the determination of tetrachloroethene (PCE) and dichloromethane (DCM) in liquid samples. PCE is the most commonly used solvent in dry-cleaning processes. PCE belongs to group 2A of carcinogens (probably carcinogenic to humans) according to the classification of the International Agency for Research on Cancer (IARC). DCM is also widely used as an industrial solvent for the purification...
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DIAGNOSIS OF MALIGNANT MELANOMA BY NEURAL NETWORK ENSEMBLE-BASED SYSTEM UTILISING HAND-CRAFTED SKIN LESION FEATURES
PublicationMalignant melanomas are the most deadly type of skin cancer but detected early have high chances for successful treatment. In the last twenty years, the interest of automated melanoma recognition detection and classification dynamically increased partially because of public datasets appearing with dermatoscopic images of skin lesions. Automated computer-aided skin cancer detection in dermatoscopic images is a very challenging task...
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SkinDepth - synthetic 3D skin lesion database
Open Research DataSkinDepth is the first synthetic 3D skin lesion database. The release of SkinDepth dataset intends to contribute to the development of algorithms for:
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A new method for real-time monitoring of volatiles in frying fumes using proton transfer reaction mass spectrometry with time-of-flight analyse
PublicationTo safeguard the consumers’ well-being, it is necessary to develop novel methods for determination of carcinogens in food, including volatiles generated during frying. The currently used procedures for analysis of volatile fraction of vegetable oils are not based on real-time measurements and thus do not enable the determination of carcinogenic compounds in frying fumes; instead, only the headspace or liquid fraction is sampled....
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Transcriptomic landscape of blood platelets in healthy donors
PublicationBlood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with...
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Optimal selection of input features and an acompanying neural network structure for the classification purposes - skin lesions case study
PublicationMalignant melanomas are the most deadly type of skin cancers however detected early enough give a high chances for successful treatment. The last years saw the dynamic growth of interest of automatic computer-aided skin cancer diagnosis. Every month brings new research results on new approaches to this problem, new methods of preprocessing, new classifiers, new ideas to follow etc. In particular, the rapid development of dermatoscopy,...
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A study of nighttime vehicle detection algorithms
Open Research DataThis dataset is from my master's thesis "A study of nighttime vehicle detection algorithms". It contains both raw data and preprocessed dataset ready to use. In the pictures below you can see how images were annotated.
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - All accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Bias mitigation benchmark that includes two datasets
Open Research DataISIC-2020 is the largest skin lesion dataset divided into two classes -- benign and malignant. It contains 33126 dermoscopic images from over 2000 patients. The diagnoses were confirmed either by histopathology, expert agreement or longitudinal follow-up. The dataset was gathered by The International Skin Imaging Collaboration (ISIC) from several medical...
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Pedestrian accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: Pedestrians. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Young drivers accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: young driver offender. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Motorcycle and moped accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: motorcyclists and mopeds. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Head-on accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, type of accidents: head-on. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Side-impact accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, type of accidents: Side-impact. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Run off road accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, type of accidents: Run off road. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Elderly people accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: elderly people (65+) - drivers, passengers and . vulnerable road user. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Cyclist accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: Cyclists. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Night accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, time of accidents: Night. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Excessive speed accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, cause of accidents: Excessive speed accidents. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Child accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: children - drivers, passengers and . vulnerable road user.. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Alcohol and drug accidents
Open Research DataData contain risk classification on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019, risk group: Offenders under influence of alcohol or drug - driver or pedestrian. Measures used to assess the level of risk are (5 classes low, low to medium, medium, medium to high, high):
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LEGO bricks for training classification network
Open Research DataThe data set contains images of 447 different classes of LEGO bricks used for training LEGO bricks classification network. The dataset contains two types of images: photos (10%) and renders (90%) aggregated into respective directories. Each directory (photos and renders) contains 447 directories labeled as the official brick type number. The images...
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Developmental odontogenic cysts - Male, 45 - Tissue image [6290730011491911]
Open Research DataThis is the histopathological image of GUM tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: VS200 Olympus slide scanner (20x magnification) and saved to DICOM format.
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2017-2019 - Medium to High and high road sections
Open Research DataData contain road sections with the highest number of accidents and victims on regional roads (voivodeship roads) in pomorskie voivodeship in 2017-2019. Measures used to assess the level of risk is: minimum 4 accidents or 4 seriously injured or fatalities per one kilometer (5 classes: low, low to medium, medium, medium to high, high):
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Adrenal gland, unspecified - Male, 1 - Tissue image [7220729599723671]
Open Research DataThis is the histopathological image of ADRENAL GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Adrenal gland, unspecified - Male, 1 - Tissue image [7220729599723331]
Open Research DataThis is the histopathological image of ADRENAL GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Adrenal gland, unspecified - Male, 1 - Tissue image [7220729599723171]
Open Research DataThis is the histopathological image of ADRENAL GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Adrenal gland, unspecified - Male, 1 - Tissue image [7220729599714301]
Open Research DataThis is the histopathological image of ADRENAL GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Adrenal gland, unspecified - Male, 1 - Tissue image [7220729599717481]
Open Research DataThis is the histopathological image of ADRENAL GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Adrenal gland, unspecified - Male, 1 - Tissue image [7220729599726571]
Open Research DataThis is the histopathological image of ADRENAL GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Accidents, victims and risk levels on regional roads in pomorskie voivodeship, 2019 - Municipality areas
Open Research DataData contain the number of accidents, victims, accident costs divided on municipality areas (119 areas) on regional roads (voivodeship roads) in pomorskie voivodeship in 2019. Measures used to assess the level of social risk are (5 classes: low, low to medium, medium, medium to high, high):