Analyzing omics data by feature combinations based on kernel functions

Lipid metabolism-related miRNAs with potential diagnostic roles in prostate cancer

(2023) Tianyuan Zhai et al.   Lipids in Health and Disease

A machine learning analysis to evaluate the outcome measures in inflammatory myopathies

(2023) Maria Giovanna Danieli et al.   AUTOIMMUNITY REVIEWS

Predicting cancer prognosis and drug response from the tumor microbiome

(2022) Leandro C. Hermida et al.   Nature Communications

Insight of a Metabolic Prognostic Model to Identify Tumor Environment and Drug Vulnerability for Lung Adenocarcinoma

(2022) Shun-Li Peng et al.   Frontiers in Immunology

A Machine Learning-Based 10 Years Ahead Prediction of Departing Foreign Visitors by Reasons: A Case on Türkiye

(2022) Onder Tutsoy et al.   Applied Sciences-Basel

Applications of machine learning in metabolomics: Disease modeling and classification

(2022) Aya Galal et al.   Frontiers in Genetics

XOmiVAE: an interpretable deep learning model for cancer classification using high-dimensional omics data

(2021) Eloise Withnell et al.   BRIEFINGS IN BIOINFORMATICS

Permutation-based identification of important biomarkers for complex diseases via machine learning models

(2021) Xinlei Mi et al.   Nature Communications

Identifying critical states of hepatocellular carcinoma based on landscape dynamic network biomarkers

(2020) Yichen Sun et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

A 17 gene panel for non‐small‐cell lung cancer prognosis identified through integrative epigenomic‐transcriptomic analyses of hypoxia‐induced epithelial–mesenchymal transition

(2019) Yue‐Lei Chen et al.   Molecular Oncology

MYC-Driven Small-Cell Lung Cancer is Metabolically Distinct and Vulnerable to Arginine Depletion

(2019) Milind D. Chalishazar et al.   CLINICAL CANCER RESEARCH

A new data analysis method based on feature linear combination

(2019) Xiaohui Lin et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Next-Generation Machine Learning for Biological Networks

(2018) Diogo M. Camacho et al.   CELL

A Large-scale, multicenter serum metabolite biomarker identification study for the early detection of hepatocellular carcinoma

(2018) Ping Luo et al.   HEPATOLOGY

Analyzing omics data by pair-wise feature evaluation with horizontal and vertical comparisons

(2018) Xin Huang et al.   JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS

Serum lipidomic analysis for the discovery of biomarkers for major depressive disorder in drug-free patients

(2018) Eun Young Kim et al.   PSYCHIATRY RESEARCH

Synergistic drug combinations for cancer identified in a CRISPR screen for pairwise genetic interactions

(2017) Kyuho Han et al.   NATURE BIOTECHNOLOGY

A fast approach to detect gene–gene synergy

(2017) Pengwei Xing et al.   Scientific Reports

Informative gene selection and the direct classification of tumors based on relative simplicity

(2016) Yuan Chen et al.   BMC BIOINFORMATICS

Deep Learning Applications for Predicting Pharmacological Properties of Drugs and Drug Repurposing Using Transcriptomic Data

(2016) Alexander Aliper et al.   MOLECULAR PHARMACEUTICS

Combining biomarkers linearly and nonlinearly for classification using the area under the ROC curve

(2016) Youyi Fong et al.   STATISTICS IN MEDICINE

The Warburg Effect: How Does it Benefit Cancer Cells?

(2016) Maria V. Liberti et al.   TRENDS IN BIOCHEMICAL SCIENCES

Discovering Pair-wise Synergies in Microarray Data

(2016) Yuan Chen et al.   Scientific Reports

Kernel methods for large-scale genomic data analysis

(2014) X. Wang et al.   BRIEFINGS IN BIOINFORMATICS

Comparative metabolomics of estrogen receptor positive and estrogen receptor negative breast cancer: alterations in glutamine and beta-alanine metabolism

(2013) Jan Budczies et al.   Journal of Proteomics

Unsupervised feature selection with ensemble learning

(2013) Haytham Elghazel et al.   MACHINE LEARNING

Early Diagnosis of Complex Diseases by Molecular Biomarkers, Network Biomarkers, and Dynamical Network Biomarkers

(2013) Rui Liu et al.   MEDICINAL RESEARCH REVIEWS

The top-scoring ‘N’ algorithm: a generalized relative expression classification method from small numbers of biomolecules

(2012) Andrew T Magis et al.   BMC BIOINFORMATICS

LIBSVM

(2012) Chih-Chung Chang et al.   ACM Transactions on Intelligent Systems and Technology

Integrative network analysis reveals active microRNAs and their functions in gastric cancer

(2011) Chien-Wei Tseng et al.   BMC Systems Biology

LASSO with cross-validation for genomic selection

(2010) M. GRAZIANO USAI et al.   Genetics Research

Tackling the widespread and critical impact of batch effects in high-throughput data

(2010) Jeffrey T. Leek et al.   NATURE REVIEWS GENETICS

Improving Cancer Classification Accuracy Using Gene Pairs

(2010) Pankaj Chopra et al.   PLoS One

The ordering of expression among a few genes can provide simple cancer biomarkers and signal BRCA1 mutations

(2009) Xue Lin et al.   BMC BIOINFORMATICS

Support Vector Machines and Kernels for Computational Biology

(2008) Asa Ben-Hur et al.   PLoS Computational Biology