Search Results - "McKinney, Brett"

Consensus features nested cross-validation by Parvandeh, Saeid, Yeh, Hung-Wen, Paulus, Martin P, McKinney, Brett A

“…Abstract Summary Feature selection can improve the accuracy of machine-learning models, but appropriate steps must be taken to avoid overfitting. Nested…”
Get full text

EpistasisRank and EpistasisKatz: interaction network centrality methods that integrate prior knowledge networks by Parvandeh, Saeid, McKinney, Brett A

“…An important challenge in gene expression analysis is to improve hub gene selection to enrich for biological relevance or improve classification accuracy for a…”
Get full text

Theoretical properties of distance distributions and novel metrics for nearest-neighbor feature selection by Dawkins, Bryan A, Le, Trang T, McKinney, Brett A

“…The performance of nearest-neighbor feature selection and prediction methods depends on the metric for computing neighborhoods and the distribution properties…”
Get full text

STatistical Inference Relief (STIR) feature selection by Le, Trang T, Urbanowicz, Ryan J, Moore, Jason H, McKinney, Brett A

“…Abstract Motivation Relief is a family of machine learning algorithms that uses nearest-neighbors to select features whose association with an outcome may be…”
Get full text

Random forest regression prediction of solid particle Erosion in elbows by Zahedi, Peyman, Parvandeh, Saeid, Asgharpour, Alireza, McLaury, Brenton S., Shirazi, Siamack A., McKinney, Brett A.

“…Solid particle erosion is an inevitable problem in oil and gas production and transportation systems, and it can cause severe damage in pipe fittings in which…”
Get full text

A Nonlinear Simulation Framework Supports Adjusting for Age When Analyzing BrainAGE by Le, Trang T, Kuplicki, Rayus T, McKinney, Brett A, Yeh, Hung-Wen, Thompson, Wesley K, Paulus, Martin P

“…Several imaging modalities, including T1-weighted structural imaging, diffusion tensor imaging, and functional MRI can show chronological age related changes…”
Get full text

Nearest-neighbor Projected-Distance Regression (NPDR) for detecting network interactions with adjustments for multiple tests and confounding by Le, Trang T, Dawkins, Bryan A, McKinney, Brett A

“…Abstract Summary Machine learning feature selection methods are needed to detect complex interaction-network effects in complicated modeling scenarios in…”
Get full text

Nuclear factor kappa-B cell (NF-κB), interferon regulatory Factor, and glucocorticoid receptor pathway activation in major depressive Disorder: The role of cytomegalovirus infection by Savitz, Jonathan, McKinney, Brett A., Meier, Timothy B., Zheng, Haixia, Ford, Bart N., Yolken, Robert H., Teague, T.Kent, Cole, Steve W.

“…•Increased activity of IRF1, NF-κB, and GR transcription control pathways was seen in MDD.•MDD-associated RNA changes derive predominately from neutrophils and…”
Get full text

Correction: Tissue-Specific Expressed Antibody Variable Gene Repertoires by Briney, Bryan S, Willis, Jordan R, Finn, Jessica A, McKinney, Brett A, Crowe, Jr, James E

“…[This corrects the article DOI: 10.1371/journal.pone.0100839.]…”
Get full text

Tissue-specific expressed antibody variable gene repertoires by Briney, Bryan S, Willis, Jordan R, Finn, Jessica A, McKinney, Brett A, Crowe, Jr, James E

“…Recent developments in genetic technologies allow deep analysis of the sequence diversity of immune repertoires, but little work has been reported on the…”
Get full text

Dynamical Hurst analysis identifies EEG channel differences between PTSD and healthy controls by Rahmani, Bahareh, Wong, Chung Ki, Norouzzadeh, Payam, Bodurka, Jerzy, McKinney, Brett

“…We employ a time-dependent Hurst analysis to identify EEG signals that differentiate between healthy controls and combat-related PTSD subjects. The Hurst…”
Get full text

Altered Populations of Natural Killer Cells, Cytotoxic T Lymphocytes, and Regulatory T Cells in Major Depressive Disorder: Association with Sleep Disturbance by Suzuki, Hideo, Savitz, Jonathan, Kent Teague, T, Gandhapudi, Siva K, Tan, Chibing, Misaki, Masaya, McKinney, Brett A, Irwin, Michael R, Drevets, Wayne C, Bodurka, Jerzy

“…Highlights • Effector memory CD8+ cells and regulatory T cells were increased in depression. • Increased memory CD8+ cells were related to sleep disturbance in…”
Get full text

Diabetes disclosure strategies in adolescents and young adult with type 1 diabetes by Pihlaskari, Andrea K., Anderson, Barbara J., Eshtehardi, Sahar S., McKinney, Brett M., Marrero, David G., Thompson, Debbe, Hilliard, Marisa E.

“…•Adolescents and young adults with diabetes must decide whether/how to tell others about their diabetes status.•We learned three approaches they use to…”
Get full text

Differential privacy-based evaporative cooling feature selection and classification with relief-F and random forests by Le, Trang T, Simmons, W Kyle, Misaki, Masaya, Bodurka, Jerzy, White, Bill C, Savitz, Jonathan, McKinney, Brett A

“…Classification of individuals into disease or clinical categories from high-dimensional biological data with low prediction error is an important challenge of…”
Get full text

Capturing the spectrum of interaction effects in genetic association studies by simulated evaporative cooling network analysis by McKinney, Brett A, Crowe, James E, Guo, Jingyu, Tian, Dehua

“…Evidence from human genetic studies of several disorders suggests that interactions between alleles at multiple genes play an important role in influencing…”
Get full text

Inflammation and neurological disease-related genes are differentially expressed in depressed patients with mood disorders and correlate with morphometric and functional imaging abnormalities by Savitz, Jonathan, Frank, Mark Barton, Victor, Teresa, Bebak, Melissa, Marino, Julie H, Bellgowan, Patrick S.F, McKinney, Brett A, Bodurka, Jerzy, Kent Teague, T, Drevets, Wayne C

“…Highlight ► Depression-associated gene expression of mononuclear cells correlate with neuroimaging abnormalities, supporting the role of immune dysfunction in…”
Get full text

The Integration of Epistasis Network and Functional Interactions in a GWAS Implicates RXR Pathway Genes in the Immune Response to Smallpox Vaccine by McKinney, Brett A, Lareau, Caleb, Oberg, Ann L, Kennedy, Richard B, Ovsyannikova, Inna G, Poland, Gregory A

“…Although many diseases and traits show large heritability, few genetic variants have been found to strongly separate phenotype groups by genotype. Complex…”
Get full text

ReliefSeq: a gene-wise adaptive-K nearest-neighbor feature selection tool for finding gene-gene interactions and main effects in mRNA-Seq gene expression data by McKinney, Brett A, White, Bill C, Grill, Diane E, Li, Peter W, Kennedy, Richard B, Poland, Gregory A, Oberg, Ann L

“…Relief-F is a nonparametric, nearest-neighbor machine learning method that has been successfully used to identify relevant variables that may interact in…”
Get full text

Exploring the role of neuronal-enriched extracellular vesicle miR-93 and interoception in major depressive disorder by Burrows, Kaiping, Figueroa-Hall, Leandra K., Stewart, Jennifer L., Alarbi, Ahlam M., Kuplicki, Rayus, Hannafon, Bethany N., Tan, Chibing, Risbrough, Victoria B., McKinney, Brett A., Ramesh, Rajagopal, Victor, Teresa A., Aupperle, Robin, Savitz, Jonathan, Teague, T. Kent, Khalsa, Sahib S., Paulus, Martin P.

“…Major depressive disorder (MDD) is associated with interoceptive processing dysfunctions, but the molecular mechanisms underlying this dysfunction are poorly…”
Get full text

The role of systems biology approaches in determining molecular signatures for the development of more effective vaccines by Pezeshki, Abdulmohammad, Ovsyannikova, Inna G, McKinney, Brett A, Poland, Gregory A, Kennedy, Richard B

“…Emerging infectious diseases are a major threat to public health, and while vaccines have proven to be one of the most effective preventive measures for…”
Get full text