Comprehensive evaluation of computational methods for predicting cancer driver genes

X Shi, H Teng, L Shi, W Bi, W Wei… - Briefings in …, 2022 - academic.oup.com
Optimal methods could effectively improve the accuracy of predicting and identifying
candidate driver genes. Various computational methods based on mutational frequency …

LOTUS: A single-and multitask machine learning algorithm for the prediction of cancer driver genes

O Collier, V Stoven, JP Vert - PLoS computational biology, 2019 - journals.plos.org
Cancer driver genes, ie, oncogenes and tumor suppressor genes, are involved in the
acquisition of important functions in tumors, providing a selective growth advantage …

Machine learning methods for prediction of cancer driver genes: a survey paper

R Andrades… - Briefings in …, 2022 - academic.oup.com
Identifying the genes and mutations that drive the emergence of tumors is a critical step to
improving our understanding of cancer and identifying new directions for disease diagnosis …

Discovering potential driver genes through an integrated model of somatic mutation profiles and gene functional information

J Xi, M Wang, A Li - Molecular BioSystems, 2017 - pubs.rsc.org
The accumulating availability of next-generation sequencing data offers an opportunity to
pinpoint driver genes that are causally implicated in oncogenesis through computational …

DriverML: a machine learning algorithm for identifying driver genes in cancer sequencing studies

Y Han, J Yang, X Qian, WC Cheng, SH Liu… - Nucleic acids …, 2019 - academic.oup.com
Although rapid progress has been made in computational approaches for prioritizing cancer
driver genes, research is far from achieving the ultimate goal of discovering a complete …

A new machine learning method for cancer mutation analysis

M Habibi, G Taheri - PLoS computational biology, 2022 - journals.plos.org
It is complicated to identify cancer-causing mutations. The recurrence of a mutation in
patients remains one of the most reliable features of mutation driver status. However, some …

Discovering potential cancer driver genes by an integrated network-based approach

K Shi, L Gao, B Wang - Molecular BioSystems, 2016 - pubs.rsc.org
Although a lot of methods have been proposed to identify driver genes, how to separate the
driver mutations from the passenger mutations is still a challenging problem in cancer …

ConsensusDriver improves upon individual algorithms for predicting driver alterations in different cancer types and individual patients

D Bertrand, S Drissler, BK Chia, JY Koh, C Li… - Cancer research, 2018 - AACR
Existing cancer driver prediction methods are based on very different assumptions and each
of them can detect only a particular subset of driver genes. Here we perform a …

LNDriver: identifying driver genes by integrating mutation and expression data based on gene-gene interaction network

PJ Wei, D Zhang, J Xia, CH Zheng - BMC bioinformatics, 2016 - Springer
Background Cancer is a complex disease which is characterized by the accumulation of
genetic alterations during the patient's lifetime. With the development of the next-generation …

MaxMIF: a new method for identifying cancer driver genes through effective data integration

Y Hou, B Gao, G Li, Z Su - Advanced Science, 2018 - Wiley Online Library
Identification of a few cancer driver mutation genes from a much larger number of passenger
mutation genes in cancer samples remains a highly challenging task. Here, a novel method …