Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review

P Csermely, T Korcsmáros, HJM Kiss, G London… - Pharmacology & …, 2013 - Elsevier
Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

Predictive genomics: a cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data

E Wang, N Zaman, S Mcgee, JS Milanese… - Seminars in cancer …, 2015 - Elsevier
Tumor genome sequencing leads to documenting thousands of DNA mutations and other
genomic alterations. At present, these data cannot be analyzed adequately to aid in the …

Long noncoding RNA associated-competing endogenous RNAs in gastric cancer

T Xia, QI Liao, X Jiang, Y Shao, B Xiao, Y Xi, J Guo - Scientific reports, 2014 - nature.com
Some long noncoding RNAs (lncRNAs) play important roles in the regulation of gene
expression by acting as competing endogenous RNAs (ceRNAs). However, the roles of …

Comprehensive analysis of lung cancer pathology images to discover tumor shape and boundary features that predict survival outcome

S Wang, A Chen, L Yang, L Cai, Y Xie, J Fujimoto… - Scientific reports, 2018 - nature.com
Pathology images capture tumor histomorphological details in high resolution. However,
manual detection and characterization of tumor regions in pathology images is labor …

[HTML][HTML] Predicting clinical outcomes from large scale cancer genomic profiles with deep survival models

S Yousefi, F Amrollahi, M Amgad, C Dong, JE Lewis… - Scientific reports, 2017 - nature.com
Translating the vast data generated by genomic platforms into accurate predictions of
clinical outcomes is a fundamental challenge in genomic medicine. Many prediction …

Improved identification of concordant and discordant gene expression signatures using an updated rank-rank hypergeometric overlap approach

KM Cahill, Z Huo, GC Tseng, RW Logan, ML Seney - Scientific reports, 2018 - nature.com
Recent advances in large-scale gene expression profiling necessitate concurrent
development of biostatistical approaches to reveal meaningful biological relationships. Most …

Model-based and model-free machine learning techniques for diagnostic prediction and classification of clinical outcomes in Parkinson's disease

C Gao, H Sun, T Wang, M Tang, NI Bohnen… - Scientific reports, 2018 - nature.com
In this study, we apply a multidisciplinary approach to investigate falls in PD patients using
clinical, demographic and neuroimaging data from two independent initiatives (University of …

Integrating feature selection and feature extraction methods with deep learning to predict clinical outcome of breast cancer

D Zhang, L Zou, X Zhou, F He - Ieee Access, 2018 - ieeexplore.ieee.org
In many microarray studies, classifiers have been constructed based on gene signatures to
predict clinical outcomes for various cancer sufferers. However, signatures originating from …

Transfer learning with convolutional neural networks for cancer survival prediction using gene-expression data

G Lopez-Garcia, JM Jerez, L Franco, FJ Veredas - PloS one, 2020 - journals.plos.org
Precision medicine in oncology aims at obtaining data from heterogeneous sources to have
a precise estimation of a given patient's state and prognosis. With the purpose of advancing …

A network based method for analysis of lncRNA-disease associations and prediction of lncRNAs implicated in diseases

X Yang, L Gao, X Guo, X Shi, H Wu, F Song, B Wang - PloS one, 2014 - journals.plos.org
Increasing evidence has indicated that long non-coding RNAs (lncRNAs) are implicated in
and associated with many complex human diseases. Despite of the accumulation of lncRNA …