Concordance between ER, PR, Ki67, and HER2‐low expression in breast cancer by MammaTyper RT‐qPCR and immunohistochemistry: implications for the practising pathologist

Authors: Nahla Badr, Mohamed Zaakouk, Qi Zhang, Daniel B. Kearns, Anthony Kong, Abeer M. Shaaban

Source: Histopathology. 85:437-450

Subject Terms: Adult, 0301 basic medicine, Cancer Research, Receptor, ErbB-2, Biopsy, Breast Neoplasms, Real-Time Polymerase Chain Reaction, Chromosome, Gene, Biochemistry, Real-time polymerase chain reaction, Pathology and Forensic Medicine, 03 medical and health sciences, Breast cancer, 0302 clinical medicine, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Health Sciences, Concordance, Biomarkers, Tumor, Pathology, Humans, Molecular Biology, Biology, Internal medicine, In Situ Hybridization, Fluorescence, Cancer, Fluorescence in situ hybridization, Life Sciences, Linguistics, Middle Aged, Immunohistochemistry, FOS: Philosophy, ethics and religion, 3. Good health, Philosophy, Ki-67 Antigen, Receptors, Estrogen, Oncology, Breast Pathology and Imaging Techniques, FOS: Languages and literature, Medicine, Female, Hormone Receptors, Biopsy, Large-Core Needle, Receptors, Progesterone, Kappa, Molecular Research on Breast Cancer

Access URL: https://pubmed.ncbi.nlm.nih.gov/38651302

A hybrid sampling combining Smote and RF algorithm for cancer chemotherapy protocols Classification

Authors: Houda AIT BRAHIM, Oumayma Banouar, Salah EL-HADAJ, Abdelmoutalib METRANE

Source: Statistics, Optimization & Information Computing. 12:617-629

Subject Terms: Life Sciences, Detector, Sampling (signal processing), 15. Life on land, Computer science, Clustering, 3. Good health, Algorithm, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Telecommunications, Medicine, Feature Selection, Molecular Biology, Internal medicine, Cancer

MOBCSA: Multi-Objective Binary Cuckoo Search Algorithm for Features Selection in Bioinformatics

Authors: Hudhaifa Mohammed Abdulwahab, S. Ajitha, Mufeed Ahmed Naji Saif, Belal Abdullah Hezam Murshed, Fahd A. Ghanem

Source: IEEE Access, Vol 12, Pp 21840-21867 (2024)

Subject Terms: FOS: Computer and information sciences, Artificial intelligence, Bioinformatics, Pattern recognition (psychology), Features selection, Selection (genetic algorithm), Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Support Vector Machines, Microarray Data Analysis and Gene Expression Profiling, Machine learning, FOS: Mathematics, Swarm Intelligence Optimization Algorithms, Feature Selection, Molecular Biology, Constraint Handling, Prediction of Protein Subcellular Localization, Arithmetic, Particle swarm optimization, Life Sciences, Cuckoo search, data mining, bioinformatics, Computer science, TK1-9971, 3. Good health, Algorithm, machine learning, multi-objective optimization, Genetic algorithm, Computer Science, Physical Sciences, Nature-Inspired Algorithms, cuckoo search algorithm, Electrical engineering. Electronics. Nuclear engineering, Binary number, Mathematics

Access URL: https://doaj.org/article/25c7751d294147d98aaa4638d7d2d53e

Sparse Variable Selection on High Dimensional Heterogeneous Data With Tree Structured Responses

Authors: Hui Liu, Xiang Liu, Jing Diao, Wenting Ye, Xueling Liu, Dehui Wei

Source: IEEE Access, Vol 12, Pp 50779-50791 (2024)

Subject Terms: Statistics and Probability, FOS: Computer and information sciences, 0301 basic medicine, Artificial intelligence, Learning and Inference in Bayesian Networks, mixed model, Confounding factors, Regularization and Variable Selection Methods, Mathematical analysis, 01 natural sciences, Methodology (stat.ME), 03 medical and health sciences, Selection (genetic algorithm), Artificial Intelligence, Lasso (programming language), Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, FOS: Mathematics, Confounding, Sparse Models, Feature Selection, 0101 mathematics, Variable (mathematics), Molecular Biology, Data mining, Statistics - Methodology, Model Selection, 0303 health sciences, genome-wide association study, Statistics, Pure mathematics, Life Sciences, Computer science, TK1-9971, World Wide Web, Dimension (graph theory), Variable Selection, Physical Sciences, Computer Science, Feature selection, Tree (set theory), Dependency (UML), Electrical engineering. Electronics. Nuclear engineering, High-Dimensional Data, Mathematics, variable selection

Access URL: http://arxiv.org/abs/1711.08265
https://doaj.org/article/1b1ef698156b4e45b7bc98012a462253

Towards U-statistics clustering inference for multiple groups

Authors: Debora Zava Bello, Márcio Valk, Gabriela Bettella Cybis

Source: Journal of Statistical Computation and Simulation. 94:204-222

Subject Terms: Statistics and Probability, Artificial intelligence, Regularization and Variable Selection Methods, Variational Inference, Clustering, Statistical hypothesis testing, Cluster analysis, Inference, Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, FOS: Mathematics, CURE data clustering algorithm, Molecular Biology, Data mining, Statistic, Fuzzy clustering, Statistics, Life Sciences, Computer science, Test statistic, Outlier, Computer Science, Physical Sciences, Clustering high-dimensional data, High-Dimensional Data, Model-Based Clustering with Mixture Models, Mathematics, Statistical inference

Nonparametric clustering of RNA‐sequencing data

Authors: Gabriel Lozano, Nadia A. Lanman, Michael A. Levine

Source: Statistical Analysis and Data Mining: The ASA Data Science Journal. 16:547-559

Subject Terms: FOS: Computer and information sciences, Artificial intelligence, Feature (linguistics), Mixture Models, Pattern recognition (psychology), Statistics - Applications, 01 natural sciences, Clustering, Identification (biology), Cluster analysis, Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, Salient, FOS: Mathematics, Applications (stat.AP), Interpretability, Expectation–maximization algorithm, 0101 mathematics, Molecular Biology, Data mining, Biology, Mixture model, Nonparametric statistics, Text Compression and Indexing Algorithms, Statistics, Botany, Life Sciences, Linguistics, Computer science, Multivariate statistics, FOS: Philosophy, ethics and religion, Algorithm, Philosophy, Computer Science, Physical Sciences, FOS: Languages and literature, Model-Based Clustering with Mixture Models, Mathematics, Maximum likelihood

Access URL: http://arxiv.org/abs/2209.11705

On the Polymorphism Information Content (PIC) – A Practical Application for the DNA Sequencing Data

Authors: Pranto Roy, Sajjad Bin Sogir, Tapati Basak

Source: European Journal of Medical and Health Research. 1:21-29

Subject Terms: 0301 basic medicine, Allele, Single-nucleotide polymorphism, 0303 health sciences, Genome-wide association study, Genome, Genotype, 4. Education, Life Sciences, Inheritance (genetic algorithm), Standards and Guidelines for Genetic Variant Interpretation, Gene, Genomic Studies and Association Analyses, Genome-Wide Association, Computational biology, 03 medical and health sciences, FOS: Biological sciences, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Genetics, Genetic association, Molecular Biology, Biology

BREAST CANCER DETECTION WITH MACHINE LEARNING APPROACH

Authors: Sunday Samuel Olofintuyi

Source: FUDMA JOURNAL OF SCIENCES. 7:216-222

Subject Terms: 0301 basic medicine, Artificial intelligence, Support vector machine, Deep Learning in Medical Image Analysis, Linear discriminant analysis, Health Professions, Logistic regression, 02 engineering and technology, Breast Cancer Diagnosis, 03 medical and health sciences, Breast cancer, Health Information Management, Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Support Vector Machines, Health Sciences, Microarray Data Analysis and Gene Expression Profiling, Machine learning, 0202 electrical engineering, electronic engineering, information engineering, Decision tree, Molecular Biology, Internal medicine, Cancer, Machine Learning in Healthcare and Medicine, Naive Bayes classifier, 4. Education, Python (programming language), Life Sciences, Computer-Aided Detection, Computer science, 3. Good health, Operating system, Computer Science, Physical Sciences, Cancer Prognosis, Medical Image Analysis, Medicine

Improving prediction of blood cancer using leukemia microarray gene data and Chi2 features with weighted convolutional neural network

Authors: Ebtisam Alabdulqader, Aisha Ahmed Alarfaj, Muhammad Umer, Ala' Abdulmajid Eshmawi, Shtwai Alsubai, Tai-hoon Kim, Imran Ashraf

Source: Sci Rep
Scientific Reports, Vol 14, Iss 1, Pp 1-15 (2024)

Subject Terms: FOS: Computer and information sciences, Artificial intelligence, Deep Learning in Medical Image Analysis, Bioinformatics, Science, Convolutional neural network, 02 engineering and technology, Gene, Article, Feature Extraction, Machine Learning, Computational biology, Automated Analysis of Blood Cell Images, Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Microscopic Blood Images, 0202 electrical engineering, electronic engineering, information engineering, Genetics, Humans, Blood cancer, Feature Selection, Molecular Biology, Internal medicine, Biology, Oligonucleotide Array Sequence Analysis, Cancer, Leukemia, Gene Expression Profiling, 4. Education, Life Sciences, Computer science, 3. Good health, Oncology, Hematologic Neoplasms, FOS: Biological sciences, Computer Science, Physical Sciences, Cancer Prognosis, Medical Image Analysis, Medicine, Neural Networks, Computer, Supervised Machine Learning, Computer Vision and Pattern Recognition, Gene expression, Algorithms, Microarray analysis techniques

Access URL: https://pubmed.ncbi.nlm.nih.gov/38972881
https://doaj.org/article/3bf758559f78447789ca1984afb1114f

IDriveGenes: Cancer Driver Genes Prediction Using Machine Learning

Authors: Yasir Ali, Muhammad Sardaraz, Muhammad Tahir, Hela Elmannai, Monia Hamdi, Amel Ksibi

Source: IEEE Access, Vol 11, Pp 28439-28453 (2023)

Subject Terms: Artificial neural network, Artificial intelligence, Support vector machine, driver genes, sequence variation, Gene, Biochemistry, Genetics and Molecular Biology, Support Vector Machines, Microarray Data Analysis and Gene Expression Profiling, Machine learning, Genetics, cancer, DNA sequencing, RNA Sequencing Data Analysis, Molecular Biology, Data mining, Biology, Accuracy, Prediction of Protein Subcellular Localization, Life Sciences, Deep learning, Computer science, TK1-9971, 3. Good health, machine learning, NGS, FOS: Biological sciences, sequence alignment, Mutation, Electrical engineering. Electronics. Nuclear engineering, Random forest

Access URL: https://doaj.org/article/75549f15bd9c419d8035210faf9788af

Saddlepoint p-values for a class of nonparametric tests for the current status and panel count data under generalized permuted block design

Authors: Abd El-Raheem M. Abd El-Raheem, Mona Hosny

Source: AIMS Mathematics, Vol 8, Iss 8, Pp 18866-18880 (2023)

Subject Terms: Statistics and Probability, Regularization and Variable Selection Methods, approximating exact p-value, Artificial Intelligence, current status data, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, QA1-939, FOS: Mathematics, two-sample tests, Molecular Biology, panel count data, Count data, Panel data, Nonparametric statistics, Nonparametric Bayesian, Statistics, Life Sciences, permuted block design, Applied mathematics, 3. Good health, Approximation error, Combinatorics, Physical Sciences, Computer Science, Poisson distribution, Model-Based Clustering with Mixture Models, saddlepoint approximation, Mathematics, Block (permutation group theory)

Access URL: https://doaj.org/article/ef0d9551121b4fd6af83e3fd50506387

Insight into breast cancer detection: new hybrid feature selection method

Authors: Warda M. Shaban

Source: Neural Computing and Applications. 35:6831-6853

Subject Terms: Artificial intelligence, Deep Learning in Medical Image Analysis, Feature (linguistics), 02 engineering and technology, Pattern recognition (psychology), Breast Cancer Diagnosis, Breast cancer, Selection (genetic algorithm), Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Health Sciences, 0202 electrical engineering, electronic engineering, information engineering, Feature Selection, Molecular Biology, Data mining, Internal medicine, Preprocessor, Cancer, FOS: Clinical medicine, Particle swarm optimization, Life Sciences, Linguistics, Computer-Aided Detection, Computer science, FOS: Philosophy, ethics and religion, 3. Good health, Algorithm, Philosophy, Dentistry, Computer Science, Physical Sciences, Feature selection, FOS: Languages and literature, Periodontics, Medicine, Advancements in Dental Research and Treatment

Improved nonparametric survival prediction using CoxPH, Random Survival Forest & DeepHit Neural Network

Authors: Naseem Asghar, Umair Khalil, Basheer Ahmad, Huda M. Alshanbari, Muhammad Hamraz, Bakhtiyar Ahmad, Dost Muhammad Khan

Source: BMC Med Inform Decis Mak
BMC Medical Informatics and Decision Making, Vol 24, Iss 1, Pp 1-17 (2024)

Subject Terms: Statistics and Probability, Random Forests, Artificial neural network, Health informatics, Artificial intelligence, Deep Learning in Medical Image Analysis, Computer applications to medicine. Medical informatics, R858-859.7, Regularization and Variable Selection Methods, Nursing, FOS: Health sciences, Statistics, Nonparametric, FOS: Economics and business, Deep Learning, Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, FOS: Mathematics, Humans, Econometrics, Molecular Biology, Model Selection, Public health, Nonparametric statistics, 9. Industry and infrastructure, Research, Statistics, Computational Biology, Life Sciences, CoxPH, Survival analysis, Survival Analysis, Computer science, 3. Good health, High-dimensional data, Feature selection, Physical Sciences, Computer Science, Medicine, Neural Networks, Computer, Covariance Estimation, DeepHit Neural Network, Mathematics, Random forest

Access URL: https://pubmed.ncbi.nlm.nih.gov/38715002
https://doaj.org/article/5c1e76b9417f47ac8e005ff5307cdff2

Error Correcting Codes Analysis for Wireless Industrial Communication based on Wavelet Packet Architecture

Authors: Mouhamad Chehaitly, Mohamed Tabaa, Jorge Querol, Fabrice Monteiro, Symeon Chatzinotas

Subject Terms: Computer network, Artificial intelligence, Network packet, Geography, Social Sciences, Life Sciences, Integration of 5G with Broadcasting Systems, Computer science, 7. Clean energy, Urban Studies, Engineering, Archaeology, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Physical Sciences, Architecture, Media Technology, Wireless, Telecommunications, Dynamics of Urban Structure through Spatial Network Analysis, Molecular Biology, Wavelet, FOS: Civil engineering

Diagnosis of Breast Cancer Pathology on the Wisconsin Dataset with the Help of Data Mining Classification and Clustering Techniques

Authors: Walid Theib Mohammad, Ronza Teete, Heyam Al-Aaraj, Yousef Rubbai, Majd Mowafaq Arabyat

Source: Appl Bionics Biomech
Applied Bionics and Biomechanics, Vol 2022 (2022)

Subject Terms: FOS: Computer and information sciences, Data Analysis, Artificial intelligence, Deep Learning in Medical Image Analysis, QH301-705.5, 02 engineering and technology, Breast Cancer Diagnosis, Clustering, 03 medical and health sciences, Cluster analysis, Breast cancer, 0302 clinical medicine, Sociology, Artificial Intelligence, Data Mining Techniques and Applications, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, 0202 electrical engineering, electronic engineering, information engineering, Data Mining, Biology (General), Molecular Biology, Data mining, Internal medicine, Cancer, Multidisciplinary approach, Software engineering, Life Sciences, Social science, Computer science, FOS: Sociology, 3. Good health, Operability, Computer Science, Physical Sciences, Medicine, TP248.13-248.65, Biotechnology, Research Article, Information Systems

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Access URL: https://pubmed.ncbi.nlm.nih.gov/35401789
https://doaj.org/article/aa5e0b34030144e1a68b653011b6e562

Sequencing of Chromosomal Locus 6q25.1 Revealed Two Significant SNPs rs2046210 and rs2046211 Associated with Breast Cancer: A Case-Control Study in Egyptian Women

Authors: Marwa H. Saied, Mohamed M. Rizk, Nesrine S El Sayed, Salma Mostafa, Salah Marzouk, Haytham Fayed

Source: Asian Pac J Cancer Prev

Subject Terms: 0301 basic medicine, Genotype, Molecular biology, TaqMan, Breast Neoplasms, Polymorphism, Single Nucleotide, Gene, Pathology and Forensic Medicine, Molecular Characterization of Colorectal Cancer, 03 medical and health sciences, Breast cancer, Biochemistry, Genetics and Molecular Biology, Health Sciences, Microarray Data Analysis and Gene Expression Profiling, Breast Cancer, Genetics, Haplotype, Humans, Estrogen receptor, Genetic Predisposition to Disease, Genetic Research on BRCA Mutations and Cancer Risk, Molecular Biology, Biology, Internal medicine, Cancer, Allele, Single-nucleotide polymorphism, 0303 health sciences, Minor allele frequency, Allele frequency, Life Sciences, Case-control study, cancer susceptibility, Polymerase chain reaction, 3. Good health, Case-Control Studies, FOS: Biological sciences, Locus (genetics), Medicine, Egypt, Female, Research Article

Access URL: https://pubmed.ncbi.nlm.nih.gov/35485697

FPLS-DC: functional partial least squares through distance covariance for imaging genetics

Authors: Wenliang Pan, Yue Shan, Chuang Li, Shuai Huang, Tengfei Li, Xinyi Liu, Hongtu Zhu

Source: Bioinformatics

Subject Terms: Genetic Markers, Statistics and Probability, 0301 basic medicine, Artificial intelligence, Neuroimaging, Regularization and Variable Selection Methods, Pattern recognition (psychology), Partial least squares regression, Statistical hypothesis testing, Computational biology, 03 medical and health sciences, 0302 clinical medicine, Inference, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, Image Processing, Computer-Assisted, FOS: Mathematics, Genetics, Humans, Least-Squares Analysis, Molecular Biology, Data mining, Biology, Curse of dimensionality, Original Paper, Covariance, Statistics, Life Sciences, Imaging genetics, Computer science, 3. Good health, Algorithm, Phenotype, FOS: Biological sciences, Physical Sciences, Genomic Selection in Plant and Animal Breeding, High-Dimensional Data, Algorithms, Mathematics, Statistical inference, Genome-Wide Association Study, Neuroscience

Access URL: https://pubmed.ncbi.nlm.nih.gov/38552322

Precision cancer classification using liquid biopsy and advanced machine learning techniques

Authors: Amr Eledkawy, Taher Hamza, Sara El-Metwally

Source: Sci Rep
Scientific Reports, Vol 14, Iss 1, Pp 1-15 (2024)

Subject Terms: 0301 basic medicine, Cancer Research, Artificial intelligence, Liquid Biopsies, Feature (linguistics), Boosting (machine learning), Breast Cancer Diagnosis, Machine Learning, Neoplasms, Pathology, Feature Selection, Internal medicine, Cancer, 0303 health sciences, 4. Education, Precision medicine, Life Sciences, DNA, Neoplasm, Computer-Aided Detection, Correlation, FOS: Philosophy, ethics and religion, 3. Good health, Physical Sciences, Gradient boosting, Cancer Prognosis, Medicine, Cell-Free Nucleic Acids, Deep Learning in Medical Image Analysis, Science, Geometry, Article, 03 medical and health sciences, Artificial Intelligence, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, FOS: Mathematics, Humans, Molecular Biology, Liquid biopsy, Liquid Biopsy, Linguistics, Computer science, Genomic Landscape of Cancer and Mutational Signatures, Philosophy, Computer Science, FOS: Languages and literature, Mathematics, Random forest

Access URL: https://pubmed.ncbi.nlm.nih.gov/38462648
https://doaj.org/article/61b04735bf7f4efd9910f8f0e4997ef0

Identification of Transcriptional Regulators Using a Combined Disease Module Identification and Prize-Collecting Steiner Tree Approach

Authors: Gihanna Galindez, Ben Anthony Lopez, David B. Blumenthal, Tim Kacprowski

Source: Network and Systems Medicine. 1

Subject Terms: Parallel computing, Pathway Analysis, Gene, Mathematical analysis, Workflow, Computational biology, Database, Identification (biology), Transcriptional regulation, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Genetics, FOS: Mathematics, Steiner tree problem, Molecular Biology, Biology, Regulator, Botany, Life Sciences, Discrete mathematics, Computer science, Analysis of Gene Interaction Networks, TRIPS architecture, 3. Good health, Stochasticity in Gene Regulatory Networks, FOS: Biological sciences, Tree (set theory), Transcription factor, Mathematics

Breast Tumor Classification with Enhanced Transfer Learning Features and Selection Using Chaotic Map-Based Optimization

Authors: S. R. Sannasi Chakravarthy, Bhalaji Nagarajan, V. Vinoth Kumar, T R Mahesh, R. Sivakami, Jonnakuti Rajkumar Annand

Source: International Journal of Computational Intelligence Systems, Vol 17, Iss 1, Pp 1-18 (2024)

Subject Terms: Optimization, Artificial intelligence, Deep Learning in Medical Image Analysis, Chaotic, Classification of Brain Tumor Type and Grade, 02 engineering and technology, Deep-learning, Pattern recognition (psychology), Breast Cancer Diagnosis, Transfer of learning, 03 medical and health sciences, Breast cancer, Selection (genetic algorithm), 0302 clinical medicine, Artificial Intelligence, Computer security, Biochemistry, Genetics and Molecular Biology, Microarray Data Analysis and Gene Expression Profiling, Machine learning, 0202 electrical engineering, electronic engineering, information engineering, CHAOS (operating system), Molecular Biology, Life Sciences, QA75.5-76.95, Transfer Learning, Computer science, 3. Good health, Neurology, Electronic computers. Computer science, Computer Science, Physical Sciences, Crow search algorithm, Cancer Prognosis, Mammograms, Mammography, Neuroscience

Access URL: https://doaj.org/article/f856d4e592b74dfe928ca9aeb0fb19ed