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Computational and Systems Oncology
Scopus
ISSN 2689-9655 · Wiley · 33 artikel di indeks
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Artikel Jurnal
HNMD‐CNN: A Hierarchical Narrowing Multi‐Deep Convolutional Neural Network for Precision Glioma Classification in 3D MRI Images
ABSTRACT Brain tumors, though rare, are significant health risks, often reaching critical stages before diagnosis. Gliomas, classified as high grade (HGG) and low grade (LGG), require early detection to reduce mortality. While two‐dimensional imaging has improved diagnostic techniques…
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EGFR Signaling and Related Pathways: Potential Targets for CRISPR‐Mediated Gene Editing System in the Colorectal Cancer
ABSTRACT As the original member of the huge family of growth factor receptors, the epidermal growth factor receptor (EGFR) has shown inherent tyrosine kinase activity. In addition to its prototypic ligand, EGF, it is activated by TGF‐α. EGFR and its ligand contribute to the pathogenesis of…
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Optimization of Immune Checkpoint Blockade via a Multiscale Model System
ABSTRACT Cancer progresses when cancer cells selectively bind to inhibitory receptors on a T cell surface, downregulating tumor immune response. One standard‐of‐care strategy to combat this process is immune checkpoint blockade. Immune checkpoint blockade occurs when a therapeutic agent binds to…
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Mathematical Modeling and the Spreading of the Cholera Epidemic Through Numerical Methods
ABSTRACT This research examines a cholera outbreak, a serious intestinal illness caused by a significant presence of harmful bacteria in the body. We developed a mathematical model to investigate how diseases spread following exposure to pathogens, emphasizing the emergence of symptoms. Initially…
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Economic Viability of Artificial Intelligence Assistance in Lung Cancer Screening Using Computed Tomography
ABSTRACT In Australia, health authorities have not implemented lung cancer screening but have explored its potential implementation through various inquiries. Evidence suggests that combining AI and CT scans for screening holds promise in terms of cost–benefit ratio, cost savings, improved…
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Time Management and Personal Efficiency in the Age of Computational and Systems Oncology
ABSTRACT The rapid advancement of medicine, fueled by big data and interdisciplinary research, has significantly transformed the landscape of computational oncology research. In this evolving environment, effective time management strategies are essential for researchers across diverse…
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Role of heterogeneity in dictating tumorigenesis in epithelial tissues
Abstract Biological systems across various length and time scales are noisy, including tissues. Why are biological tissues inherently chaotic? Does heterogeneity play a role in determining the physiology and pathology of tissues? How do physical and biochemical heterogeneity crosstalk to dictate…
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Artikel Jurnal
A review of computational modeling, machine learning and image analysis in cancer metastasis dynamics
Abstract Cancer is a life‐threatening process that stems from genetic mutations in cells, which leads to the formation of tumors, and is a major cause of deaths in the United States, with secondary metastasis being a major driver of fatality. The development of an optimal metastatic environment is…
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Unraveling the dangerous duet between cancer cell plasticity and drug resistance
Abstract Cancer cell plasticity is the ability of tumor cells to switch phenotypes and is one of the predominant requisites of cancer cells capable of undergoing metastasis. Cancer cell plasticity is also recognized as one of the major contributors to intratumoral heterogeneity, a critical factor…
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Generative adversarial networks applied to gene expression analysis: An interdisciplinary perspective
Abstract The remarkable flexibility and adaptability of generative adversarial networks (GANs) have led to the proliferation of its models in bioinformatics research. Proteomic and transcriptomic profiles have been shown to be promising methods for discovering and identifying disease biomarkers…
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Quantitative models for the inference of intratumor heterogeneity
Abstract Intratumor heterogeneity (ITH) is an omnipresent property of cancers and predicts poor survival in most types of cancer. The propensity to metastasize and the regrowth of tumors after therapy are both associated with ITH. Quantification of the level of ITH in a malignancy is hence of great…
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Artikel Jurnal
Mutations in a set of ancient matrisomal glycoprotein genes across neoplasia predispose to disruption of morphogenetic transduction
Abstract Misexpression and remodeling of the extracellular matrix is a canonical hallmark of cancer, although the extent of cancer‐associated aberrations in the genes coding for extracellular matrix (ECM) proteins and the consequences thereof are not well understood. In this study, we examined the…
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Modeling the role of HIF in the regulation of metabolic key genes LDH and PDH: Emergence of Warburg phenotype
Abstract Oxygenation of tumors and the effect of hypoxia on cancer cell metabolism is a widely studied subject. Hypoxia‐inducible factor (HIF), the main actor in the cell response to hypoxia, represents a potential target in cancer therapy. HIF is involved in many biological processes such as cell…
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Artikel Jurnal
Inference on spatial heterogeneity in tumor microenvironment using spatial transcriptomics data
Abstract In the tumor microenvironment (TME), functional interactions among tumor, immune, and stromal cells and the extracellular matrix play key roles in tumor progression, invasion, immune modulation, and response to treatment. Intra‐tumor heterogeneity is ubiquitous not only at the genetic and…
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Artikel Jurnal
SITH: An R package for visualizing and analyzing a spatial model of intratumor heterogeneity
Abstract Cancer progression, including the development of intratumor heterogeneity, is inherently a spatial process. Mathematical models of tumor evolution may be a useful starting point for understanding the patterns of heterogeneity that can emerge in the presence of spatial growth. A commonly…
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Establishing combination PAC‐1 and TRAIL regimens for treating ovarian cancer based on patient‐specific pharmacokinetic profiles using in silico clinical trials
Abstract Ovarian cancer is commonly diagnosed in its late stages, and new treatment modalities are needed to improve patient outcomes and survival. We have recently established the synergistic effects of combination tumor necrosis factor‐related apoptosis‐inducing ligand (TRAIL) and procaspase…
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Cell geometry distinguishes migration‐associated heterogeneity in two‐dimensional systems
Abstract In vitro migration assays are a cornerstone of cell biology and have found extensive utility in research. Over the past decade, several variations of the two‐dimensional (2D) migration assay have improved our understanding of this fundamental process. However, the ability of these…
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Artikel Jurnal
Multiscale modeling of tumor adaption and invasion following anti‐angiogenic therapy
Abstract In order to promote continued growth, a tumor must recruit new blood vessels, a process known as tumor angiogenesis. Many therapies have been tested that aim to inhibit tumor angiogenesis, with the goal of starving the tumor of nutrients and preventing tumor growth. However, many of these…
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Oncogenetic network estimation with disjunctive Bayesian networks
Abstract Motivation: Cancer is the process of accumulating genetic alterations that confer selective advantages to tumor cells. The order in which aberrations occur is not arbitrary, and inferring the order of events is challenging due to the lack of longitudinal samples from tumors. Moreover, a…
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A computational model for investigating the evolution of colonic crypts during Lynch syndrome carcinogenesis
Abstract Lynch syndrome (LS), the most common inherited colorectal cancer (CRC) syndrome, increases the cancer risk in affected individuals. LS is caused by pathogenic germline variants in one of the DNA mismatch repair (MMR) genes, complete inactivation of which causes numerous mutations in…