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With the increased affordability and availability of whole-genome sequencing, large-scale and high-throughput gene expression is widely used to characterize diseases, including cancers. However, establishing specificity in cancer diagnosis…
Evolutionary therapy (ET) aims to steer tumor evolution by adjusting treatment timing and dosing to control rather than eradicate tumor burden. Clinical use requires reliable monitoring of tumor dynamics to inform mathematical models that…
Osteosarcoma is the most common primary malignant bone tumor, which has high mortality due to easy lung metastasis. Osteosarcoma is a highly anaplastic, pleomorphic tumor with a variety of tumor cell morphology, including fusiform, oval,…
Assessing the pre-operative risk of lymph node metastases in endometrial cancer patients is a complex and challenging task. In principle, machine learning and deep learning models are flexible and expressive enough to capture the dynamics…
The prediction of cancer prognosis and metastatic potential immediately after the initial diagnoses is a major challenge in current clinical research. The relevance of such a signature is clear, as it will free many patients from the agony…
Prostate cancer is one of the most common causes of cancer deaths in men. There is a growing demand for noninvasively and accurately diagnostic methods that facilitate the current standard prostate cancer risk assessment in clinical…
In this paper we propose network methodology to infer prognostic cancer biomarkers based on the epigenetic pattern DNA methylation. Epigenetic processes such as DNA methylation reflect environmental risk factors, and are increasingly…
Theoretical reasoning suggests that human cancer may result from knocking down the genetic constraints evolved for maintenance of the metazoan multicellularity, which, however, requires a critical test. Using xenograft-based experimental…
Many machine learning models have been proposed to classify phenotypes from gene expression data. In addition to their good performance, these models can potentially provide some understanding of phenotypes by extracting explanations for…
Breast cancer is one of the leading causes of death among women across the globe. It is difficult to treat if detected at advanced stages, however, early detection can significantly increase chances of survival and improves lives of…
Breast cancer is one of the most common causes of cancer-related death in women worldwide. Early and accurate diagnosis of breast cancer may significantly increase the survival rate of patients. In this study, we aim to develop a fully…
Brain metastases affect approximately between 20% and 40% of cancer patients and are commonly treated with radiotherapy or radiosurgery. Early prediction of recurrence following treatment could enable timely clinical intervention and…
Predicting spatial gene expression from H&E histology offers a scalable and clinically accessible alternative to sequencing, but realizing clinical impact requires models that generalize across cancer types and capture biologically coherent…
Mathematical modeling in cancer has been growing in popularity and impact since its inception in 1932. The first theoretical mathematical modeling in cancer research was focused on understanding tumor growth laws and has grown to include…
The prediction plays the important role in detecting efficient protection and therapy of cancer. The prediction of mutations in gene needs a diagnostic and classification, which is based on the whole database (big dataset), to reach…
Complex gene interactions play a significant role in cancer progression, driving cellular behaviors that contribute to tumor growth, invasion, and metastasis. Gene co-expression networks model the functional connectivity between genes under…
Predicting TNM stage is the major determinant of breast cancer prognosis and treatment. The essential part of TNM stage classification is whether the cancer has metastasized to the regional lymph nodes (N-stage). Pathologic N-stage…
Breast cancer is one of the deadliest cancers causing about massive number of patients to die annually all over the world according to the WHO. It is a kind of cancer that develops when the tissues of the breast grow rapidly and unboundly.…
Late diagnosis and high costs are key factors that negatively impact the care of cancer patients worldwide. Although the availability of biological markers for the diagnosis of cancer type is increasing, costs and reliability of tests…
Gene expression analysis is a critical method for cancer classification, enabling precise diagnoses through the identification of unique molecular signatures associated with various tumors. Identifying cancer-specific genes from gene…