Predicting potential cancer genes by integrating network properties, sequence features and functional annotations

W Liu, HW Xie - Science China Life Sciences, 2013 - Springer
The discovery of novel cancer genes is one of the main goals in cancer research.
Bioinformatics methods can be used to accelerate cancer gene discovery, which may help in …

[HTML][HTML] Essentiality, protein–protein interactions and evolutionary properties are key predictors for identifying cancer-associated genes using machine learning

A Safadi, SC Lovell, AJ Doig - Scientific Reports, 2024 - nature.com
The distinctive nature of cancer as a disease prompts an exploration of the special
characteristics the genes implicated in cancer exhibit. The identification of cancer …

[HTML][HTML] Discovering cancer genes by integrating network and functional properties

L Li, K Zhang, J Lee, S Cordes, DP Davis… - BMC medical genomics, 2009 - Springer
Background Identification of novel cancer-causing genes is one of the main goals in cancer
research. The rapid accumulation of genome-wide protein-protein interaction (PPI) data in …

[PDF][PDF] Prediction of core cancer genes using a hybrid of feature selection and machine learning methods

YX Liu, NN Zhang, Y He, LJ Lun - Genetics and Molecular …, 2015 - m.jstshuichan.com
Machine learning techniques are of great importance in the analysis of microarray
expression data, and provide a systematic and promising way to predict core cancer genes …

[HTML][HTML] Incorporating gene co-expression network in identification of cancer prognosis markers

S Ma, M Shi, Y Li, D Yi, BC Shia - BMC bioinformatics, 2010 - Springer
Background Extensive biomedical studies have shown that clinical and environmental risk
factors may not have sufficient predictive power for cancer prognosis. The development of …

Integrative gene network construction for predicting a set of complementary prostate cancer genes

J Ahn, Y Yoon, C Park, E Shin, S Park - Bioinformatics, 2011 - academic.oup.com
Motivation: Diagnosis and prognosis of cancer and understanding oncogenesis within the
context of biological pathways is one of the most important research areas in bioinformatics …

Identification of genes of four malignant tumors and a novel prediction model development based on PPI data and support vector machines

M Li, P Wang, N Zhang, L Guo, YM Feng - Cancer gene therapy, 2020 - nature.com
Triple-negative breast cancer (TNBC), colon adenocarcinoma (COAD), ovarian cancer (OV),
and glioblastoma multiforme (GBM) are common malignant tumors, in which significant …

Machine learning-based approaches for disease gene prediction

DH Le - Briefings in functional genomics, 2020 - academic.oup.com
Disease gene prediction is an essential issue in biomedical research. In the early days,
annotation-based approaches were proposed for this problem. With the development of high …

[HTML][HTML] Contextualizing genes by using text-mined co-occurrence features for cancer gene panel discovery

HO Chen, PC Lin, CR Liu, CS Wang… - Frontiers in Genetics, 2021 - frontiersin.org
Developing a biomedical-explainable and validatable text mining pipeline can help in
cancer gene panel discovery. We create a pipeline that can contextualize genes by using …

Enhancing cancer driver gene prediction by protein-protein interaction network

C Liu, Y Dai, K Yu, ZK Zhang - IEEE/ACM Transactions on …, 2021 - ieeexplore.ieee.org
With the advances in gene sequencing technologies, millions of somatic mutations have
been reported in the past decades, but mining cancer driver genes with oncogenic …