Computational dynamic approaches for temporal omics data with applications to systems medicine

Y Liang, A Kelemen - BioData mining, 2017 - Springer
Modeling and predicting biological dynamic systems and simultaneously estimating the
kinetic structural and functional parameters are extremely important in systems and …

Early epitope-specific IgE antibodies are predictive of childhood peanut allergy

M Suprun, SH Sicherer, RA Wood, SM Jones… - Journal of Allergy and …, 2020 - Elsevier
Background Peanut allergy is characterized by the development of IgE against peanut
antigen. Objective We sought to evaluate the evolution of epitope-specific (es) IgE and …

[HTML][HTML] Early quantification of systemic inflammatory proteins predicts long-term treatment response to tofacitinib and etanercept

LE Tomalin, J Kim, JC da Rosa, J Lee, LJ Fitz… - Journal of Investigative …, 2020 - Elsevier
The application of machine learning to longitudinal gene-expression profiles has
demonstrated potential to decrease the assessment gap, between biochemical …

Discriminating sample groups with multi-way data

T Lyu, EF Lock, LE Eberly - Biostatistics, 2017 - academic.oup.com
High-dimensional linear classifiers, such as distance weighted discrimination (DWD) and
versions of the support vector machine (SVM), are commonly used in biomedical research to …

Transcriptome modulation by hydrocortisone in severe burn shock: ancillary analysis of a prospective randomized trial

J Plassais, F Venet, MA Cazalis, D Le Quang, A Pachot… - Critical Care, 2017 - Springer
Background Despite shortening vasopressor use in shock, hydrocortisone administration
remains controversial, with potential harm to the immune system. Few studies have …

Regularization method for predicting an ordinal response using longitudinal high-dimensional genomic data

J Hou, KJ Archer - Statistical applications in genetics and molecular …, 2015 - degruyter.com
An ordinal scale is commonly used to measure health status and disease related outcomes
in hospital settings as well as in translational medical research. In addition, repeated …

Principal trend analysis for time-course data with applications in genomic medicine

Y Zhang, R Davis - The Annals of Applied Statistics, 2013 - JSTOR
Time-course high-throughput gene expression data are emerging in genomic and
translational medicine. Extracting interesting time-course patterns from a patient cohort can …

Joint principal trend analysis for longitudinal high‐dimensional data

Y Zhang, Z Ouyang - Biometrics, 2018 - Wiley Online Library
We consider a research scenario motivated by integrating multiple sources of information for
better knowledge discovery in diverse dynamic biological processes. Given two longitudinal …

Separating and reintegrating latent variables to improve classification of genomic data

NY Payne, JA Gagnon-Bartsch - Biostatistics, 2022 - academic.oup.com
Genomic data sets contain the effects of various unobserved biological variables in addition
to the variable of primary interest. These latent variables often affect a large number of …

Feature selection for longitudinal data by using sign averages to summarize gene expression values over time

S Tian, C Wang - BioMed Research International, 2019 - Wiley Online Library
With the rapid evolution of high‐throughput technologies, time series/longitudinal high‐
throughput experiments have become possible and affordable. However, the development …