Using machine learning approaches for multi-omics data analysis: A review

PS Reel, S Reel, E Pearson, E Trucco… - Biotechnology advances, 2021 - Elsevier
With the development of modern high-throughput omic measurement platforms, it has
become essential for biomedical studies to undertake an integrative (combined) approach to …

Methods of integrating data to uncover genotype–phenotype interactions

MD Ritchie, ER Holzinger, R Li… - Nature Reviews …, 2015 - nature.com
Recent technological advances have expanded the breadth of available omic data, from
whole-genome sequencing data, to extensive transcriptomic, methylomic and metabolomic …

Machine learning: its challenges and opportunities in plant system biology

M Hesami, M Alizadeh, AMP Jones… - Applied Microbiology and …, 2022 - Springer
Sequencing technologies are evolving at a rapid pace, enabling the generation of massive
amounts of data in multiple dimensions (eg, genomics, epigenomics, transcriptomic …

Machine learning and systems genomics approaches for multi-omics data

E Lin, HY Lane - Biomarker research, 2017 - Springer
In light of recent advances in biomedical computing, big data science, and precision
medicine, there is a mammoth demand for establishing algorithms in machine learning and …

A survey of algorithms for dense subgraph discovery

VE Lee, N Ruan, R Jin, C Aggarwal - Managing and mining graph data, 2010 - Springer
In this chapter, we present a survey of algorithms for dense subgraph discovery. The
problem of dense subgraph discovery is closely related to clustering though the two …

Data-driven graph construction and graph learning: A review

L Qiao, L Zhang, S Chen, D Shen - Neurocomputing, 2018 - Elsevier
A graph is one of important mathematical tools to describe ubiquitous relations. In the
classical graph theory and some applications, graphs are generally provided in advance, or …

Robust predictive model for evaluating breast cancer survivability

K Park, A Ali, D Kim, Y An, M Kim, H Shin - Engineering Applications of …, 2013 - Elsevier
Objective Many machine learning models have aided medical specialists in diagnosis and
prognosis for breast cancer. Accuracy has been regarded as a primary measurement for the …

Multi-omics research strategies in ischemic stroke: A multidimensional perspective

W Li, C Shao, H Zhou, H Du, H Chen, H Wan… - Ageing Research …, 2022 - Elsevier
Ischemic stroke (IS) is a multifactorial and heterogeneous neurological disorder with high
rate of death and long-term impairment. Despite years of studies, there are still no stroke …

Breast cancer survivability prediction using labeled, unlabeled, and pseudo-labeled patient data

J Kim, H Shin - Journal of the American Medical Informatics …, 2013 - academic.oup.com
Background Prognostic studies of breast cancer survivability have been aided by machine
learning algorithms, which can predict the survival of a particular patient based on historical …

Knowledge boosting: a graph-based integration approach with multi-omics data and genomic knowledge for cancer clinical outcome prediction

D Kim, JG Joung, KA Sohn, H Shin… - Journal of the …, 2015 - academic.oup.com
Objective Cancer can involve gene dysregulation via multiple mechanisms, so no single
level of genomic data fully elucidates tumor behavior due to the presence of numerous …