AIMC Topic: Oncogenes

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Statistical characterization and classification of colon microarray gene expression data using multiple machine learning paradigms.

Computer methods and programs in biomedicine
OBJECTIVE: A colon microarray data is a repository of thousands of gene expressions with different strengths for each cancer cell. It is necessary to detect which genes are responsible for cancer growth. This study presents an exhaustive comparative ...

Machine Learning Classification and Structure-Functional Analysis of Cancer Mutations Reveal Unique Dynamic and Network Signatures of Driver Sites in Oncogenes and Tumor Suppressor Genes.

Journal of chemical information and modeling
In this study, we developed two cancer-specific machine learning classifiers for prediction of driver mutations in cancer-associated genes that were validated on canonical data sets of functionally validated mutations and applied to a large cancer ge...

G2Vec: Distributed gene representations for identification of cancer prognostic genes.

Scientific reports
Identification of cancer prognostic genes is important in that it can lead to accurate outcome prediction and better therapeutic trials for cancer patients. Many computational approaches have been proposed to achieve this goal; however, there is room...

Integrative modeling of multi-omics data to identify cancer drivers and infer patient-specific gene activity.

BMC systems biology
BACKGROUND: High throughput technologies have been used to profile genes in multiple different dimensions, such as genetic variation, copy number, gene and protein expression, epigenetics, metabolomics. Computational analyses often treat these differ...

AI-Driven Drug Target Screening Platform Identified Oncogene CACNA2D1 Activated by Enhancer Infestation in Epstein-Barr Virus-Associated Nasopharyngeal Carcinoma.

International journal of molecular sciences
The management of nasopharyngeal cancer (NPC) is rapidly evolving, with immune checkpoint inhibitors emerging as a prominent treatment approach. However, drug development targeting specific molecular and cellular abnormalities in NPC has slowed. Rece...

Enhancing Molecular Network-Based Cancer Driver Gene Prediction Using Machine Learning Approaches: Current Challenges and Opportunities.

Journal of cellular and molecular medicine
Cancer is a complex disease driven by mutations in the genes that play critical roles in cellular processes. The identification of cancer driver genes is crucial for understanding tumorigenesis, developing targeted therapies and identifying rational ...

EPIMUTESTR: a nearest neighbor machine learning approach to predict cancer driver genes from the evolutionary action of coding variants.

Nucleic acids research
Discovering rare cancer driver genes is difficult because their mutational frequency is too low for statistical detection by computational methods. EPIMUTESTR is an integrative nearest-neighbor machine learning algorithm that identifies such marginal...

Using Machine Learning and Natural Language Processing to Review and Classify the Medical Literature on Cancer Susceptibility Genes.

JCO clinical cancer informatics
PURPOSE: The medical literature relevant to germline genetics is growing exponentially. Clinicians need tools that help to monitor and prioritize the literature to understand the clinical implications of pathogenic genetic variants. We developed and ...

A deep learning model based on sparse auto-encoder for prioritizing cancer-related genes and drug target combinations.

Carcinogenesis
Prioritization of cancer-related genes from gene expression profiles and proteomic data is vital to improve the targeted therapies research. Although computational approaches have been complementing high-throughput biological experiments on the under...