Machine Learning Models for the Identification of Prognostic and Predictive Cancer Biomarkers: A Systematic Review

Habitat Imaging Biomarkers for Diagnosis and Prognosis in Cancer Patients Infected with COVID-19

(2023) Muhammad Aminu et al.   Cancers

Efficacy and clinicogenomic correlates of response to immune checkpoint inhibitors alone or with chemotherapy in non-small cell lung cancer

(2023) Lingzhi Hong et al.   Nature Communications

Development and validation of a prognostic and predictive 32-gene signature for gastric cancer

(2022) Jae-Ho Cheong et al.   Nature Communications

Particle Swarm Optimization: A Comprehensive Survey

(2022) Tareq M. Shami et al.   IEEE Access

On evaluation metrics for medical applications of artificial intelligence

(2022) Steven A. Hicks et al.   Scientific Reports

Hybrid binary whale with harris hawks for feature selection

(2022) Ranya Alwajih et al.   NEURAL COMPUTING & APPLICATIONS

Identification of key microRNAs as predictive biomarkers of Nilotinib response in chronic myeloid leukemia: a sub-analysis of the ENESTxtnd clinical trial

(2022) Ryan Yen et al.   LEUKEMIA

Machine learning with in silico analysis markedly improves survival prediction modeling in colon cancer patients

(2022) Choong‐Jae Lee et al.   Cancer Medicine

The optimal design of clinical trials with potential biomarker effects: A novel computational approach

(2021) Yitao Lu et al.   STATISTICS IN MEDICINE

Automated digital TIL analysis (ADTA) adds prognostic value to standard assessment of depth and ulceration in primary melanoma

(2021) Michael R. Moore et al.   Scientific Reports

Diagnostic and prognostic capabilities of a biomarker and EMR‐based machine learning algorithm for sepsis

(2021) Ishan Taneja et al.   CTS-Clinical and Translational Science

Cancer Grade Model: a multi-gene machine learning-based risk classification for improving prognosis in breast cancer

(2021) E. Amiri Souri et al.   BRITISH JOURNAL OF CANCER

Radiomic machine learning for predicting prognostic biomarkers and molecular subtypes of breast cancer using tumor heterogeneity and angiogenesis properties on MRI

(2021) Ji Young Lee et al.   EUROPEAN RADIOLOGY

Machine learning in health care and laboratory medicine: General overview of supervised learning and Auto‐ML

(2021) Hooman H. Rashidi et al.   International Journal of Laboratory Hematology

Biomarker Identification through Multiomics Data Analysis of Prostate Cancer Prognostication Using a Deep Learning Model and Similarity Network Fusion

(2021) Tzu-Hao Wang et al.   Cancers

Development of a Machine Learning-Based Autophagy-Related lncRNA Signature to Improve Prognosis Prediction in Osteosarcoma Patients

(2021) Guang-Zhi Zhang et al.   Frontiers in Molecular Biosciences

Classification of Reservoir Recovery Factor for Oil and Gas Reservoirs: A Multi-Objective Feature Selection Approach

(2021) Qasem Al-Tashi et al.   Journal of Marine Science and Engineering

A highly predictive autoantibody-based biomarker panel for prognosis in early-stage NSCLC with potential therapeutic implications

(2021) Akshay J. Patel et al.   BRITISH JOURNAL OF CANCER

Prognostic biomarkers for predicting papillary thyroid carcinoma patients at high risk using nine genes of apoptotic pathway

(2021) Chakit Arora et al.   PLoS One

Feature set optimization in biomarker discovery from genome scale data

(2020) V Fortino et al.   BIOINFORMATICS

Deep learning for prediction of colorectal cancer outcome: a discovery and validation study

(2020) Ole-Johan Skrede et al.   LANCET

Novel prognostic prediction model constructed through machine learning on the basis of methylation-driven genes in kidney renal clear cell carcinoma

(2020) Weihao Tang et al.   BIOSCIENCE REPORTS

A practical perspective on the concordance index for the evaluation and selection of prognostic time-to-event models

(2020) Enrico Longato et al.   JOURNAL OF BIOMEDICAL INFORMATICS

A lncRNA prognostic signature associated with immune infiltration and tumour mutation burden in breast cancer

(2020) Zijian Liu et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

Exploration of predictive and prognostic alternative splicing signatures in lung adenocarcinoma using machine learning methods

(2020) Qidong Cai et al.   Journal of Translational Medicine

A comparison of machine learning methods for survival analysis of high-dimensional clinical data for dementia prediction

(2020) Annette Spooner et al.   Scientific Reports

Deep learning-based clustering robustly identified two classes of sepsis with both prognostic and predictive values

(2020) Zhongheng Zhang et al.   EBioMedicine

Application of Artificial Intelligence for Preoperative Diagnostic and Prognostic Prediction in Epithelial Ovarian Cancer Based on Blood Biomarkers

(2019) Eiryo Kawakami et al.   CLINICAL CANCER RESEARCH

-Omics biomarker identification pipeline for translational medicine

(2019) Laura Bravo-Merodio et al.   Journal of Translational Medicine

How to develop machine learning models for healthcare

(2019) Po-Hsuan Cameron Chen et al.   NATURE MATERIALS

A Four-Pseudogene Classifier Identified by Machine Learning Serves as a Novel Prognostic Marker for Survival of Osteosarcoma

(2019) Feng Liu et al.   Genes

Subgroup identification for precision medicine: A comparative review of 13 methods

(2019) Wei‐Yin Loh et al.   Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery

Automated optimized parameters for T-distributed stochastic neighbor embedding improve visualization and analysis of large datasets

(2019) Anna C. Belkina et al.   Nature Communications

Machine Learning Approaches to Radiogenomics of Breast Cancer using Low-Dose Perfusion Computed Tomography: Predicting Prognostic Biomarkers and Molecular Subtypes

(2019) Eun Kyung Park et al.   Scientific Reports

Distinguishing prognostic and predictive biomarkers: an information theoretic approach

(2018) Konstantinos Sechidis et al.   BIOINFORMATICS

DeepSurv: personalized treatment recommender system using a Cox proportional hazards deep neural network

(2018) Jared L. Katzman et al.   BMC Medical Research Methodology

Tissue Phenomics for prognostic biomarker discovery in low- and intermediate-risk prostate cancer

(2018) Nathalie Harder et al.   Scientific Reports

A prognostic 3-long noncoding RNA signature for patients with gastric cancer

(2018) Peng Cheng   JOURNAL OF CELLULAR BIOCHEMISTRY

G2Vec: Distributed gene representations for identification of cancer prognostic genes

(2018) Jonghwan Choi et al.   Scientific Reports

Peering Into the Black Box of Artificial Intelligence: Evaluation Metrics of Machine Learning Methods

(2018) Guy S. Handelman et al.   AMERICAN JOURNAL OF ROENTGENOLOGY

Deep learning provides a new computed tomography-based prognostic biomarker for recurrence prediction in high-grade serous ovarian cancer

(2018) Shuo Wang et al.   RADIOTHERAPY AND ONCOLOGY

An Improved Method for Prediction of Cancer Prognosis by Network Learning

(2018) Minseon Kim et al.   Genes

What is precision medicine?

(2017) Inke R. König et al.   EUROPEAN RESPIRATORY JOURNAL

Discrimination and Calibration of Clinical Prediction Models

(2017) Ana Carolina Alba et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

The FDA NIH Biomarkers, EndpointS, and other Tools (BEST) resource in neuro-oncology

(2017) Daniel N Cagney et al.   NEURO-ONCOLOGY

Individual treatment effect prediction for amyotrophic lateral sclerosis patients

(2017) Heidi Seibold et al.   STATISTICAL METHODS IN MEDICAL RESEARCH

Patient subgroup identification for clinical drug development

(2017) Xin Huang et al.   STATISTICS IN MEDICINE

A Deep Learning-Based Radiomics Model for Prediction of Survival in Glioblastoma Multiforme

(2017) Jiangwei Lao et al.   Scientific Reports

A novel machine learning approach reveals latent vascular phenotypes predictive of renal cancer outcome

(2017) Nathan Ing et al.   Scientific Reports

Biomarkers and personalized medicine: current status and further perspectives with special focus on dermatology

(2016) Lilla Landeck et al.   EXPERIMENTAL DERMATOLOGY

Model-Based Recursive Partitioning for Subgroup Analyses

(2016) Heidi Seibold et al.  

Use of the concordance index for predictors of censored survival data

(2016) Adam R Brentnall et al.   STATISTICAL METHODS IN MEDICAL RESEARCH

Tutorial in biostatistics: data-driven subgroup identification and analysis in clinical trials

(2016) Ilya Lipkovich et al.   STATISTICS IN MEDICINE

Model-Based Recursive Partitioning for Subgroup Analyses

(2016) Heidi Seibold et al.   International Journal of Biostatistics

Predictive biomarkers for treatment selection: statistical considerations

(2015) James J Chen et al.   Biomarkers in Medicine

Regularized outcome weighted subgroup identification for differential treatment effects

(2015) Yaoyao Xu et al.   BIOMETRICS

Biomarker: Predictive or Prognostic?

(2015) Karla V. Ballman   JOURNAL OF CLINICAL ONCOLOGY

A PRIM approach to predictive-signature development for patient stratification

(2014) Gong Chen et al.   STATISTICS IN MEDICINE

Estimating treatment effect heterogeneity in randomized program evaluation

(2013) Kosuke Imai et al.   Annals of Applied Statistics

Preferred Reporting Items for Systematic Reviews and Meta-Analyses: The PRISMA Statement

(2013) David Moher   ANNALS OF INTERNAL MEDICINE

Plasma MicroRNA Are Disease Response Biomarkers in Classical Hodgkin Lymphoma

(2013) K. Jones et al.   CLINICAL CANCER RESEARCH

A Survey on Filter Techniques for Feature Selection in Gene Expression Microarray Analysis

(2012) C. Lazar et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Personalized Medicine: Progress and Promise

(2011) Isaac S. Chan et al.   Annual Review of Genomics and Human Genetics

A generic operational strategy to qualify translational safety biomarkers

(2011) Katja Matheis et al.   DRUG DISCOVERY TODAY

Molecular diagnosis and therapy of hepatocellular carcinoma (HCC): An emerging field for advanced technologies

(2011) Jens U. Marquardt et al.   JOURNAL OF HEPATOLOGY

Subgroup identification based on differential effect search-A recursive partitioning method for establishing response to treatment in patient subpopulations

(2011) Ilya Lipkovich et al.   STATISTICS IN MEDICINE

Subgroup identification from randomized clinical trial data

(2011) Jared C. Foster et al.   STATISTICS IN MEDICINE

Improving the precision of classification trees

(2010) Wei-Yin Loh   Annals of Applied Statistics

Interaction Trees with Censored Survival Data

(2008) Xiaogang Su et al.