TimeTrial: An Interactive Application for Optimizing the Design and Analysis of Transcriptomic Times-Series Data in Circadian Biology Research

Bootstrapping and Empirical Bayes Methods Improve Rhythm Detection in Sparsely Sampled Data

(2018) Alan L. Hutchison et al.   JOURNAL OF BIOLOGICAL RHYTHMS

Universal method for robust detection of circadian state from gene expression

(2018) Rosemary Braun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Guidelines for Genome-Scale Analysis of Biological Rhythms

(2017) Michael E. Hughes et al.   JOURNAL OF BIOLOGICAL RHYTHMS

MetaCycle: an integrated R package to evaluate periodicity in large scale data

(2016) Gang Wu et al.   BIOINFORMATICS

Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment

(2015) Marek Gierliński et al.   BIOINFORMATICS

SW1PerS: Sliding windows and 1-persistence scoring; discovering periodicity in gene expression time series data

(2015) Jose A. Perea et al.   BMC BIOINFORMATICS

Mutually exclusive recurrent somatic mutations in MAP2K1 and BRAF support a central role for ERK activation in LCH pathogenesis

(2014) R. Chakraborty et al.   BLOOD

Evaluation of Five Methods for Genome-Wide Circadian Gene Identification

(2014) Gang Wu et al.   JOURNAL OF BIOLOGICAL RHYTHMS

Detecting Rhythms in Time Series with RAIN

(2014) Paul F. Thaben et al.   JOURNAL OF BIOLOGICAL RHYTHMS

A circadian gene expression atlas in mammals: Implications for biology and medicine

(2014) Ray Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Circadian Melatonin Rhythm and Excessive Daytime Sleepiness in Parkinson Disease

(2014) Aleksandar Videnovic et al.   JAMA Neurology

Design and analysis of large-scale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data

(2013) Anastasia Deckard et al.   BIOINFORMATICS

Brain-Specific Rescue of Clock Reveals System-Driven Transcriptional Rhythms in Peripheral Tissue

(2012) Michael E. Hughes et al.   PLoS Genetics

Shift work and cardiovascular disease – pathways from circadian stress to morbidity

(2011) Sampsa Puttonen et al.   SCANDINAVIAN JOURNAL OF WORK ENVIRONMENT & HEALTH

A Molecular Mechanism for Circadian Clock Negative Feedback

(2011) H. A. Duong et al.   SCIENCE

Analyzing circadian expression data by harmonic regression based on autoregressive spectral estimation

(2010) R. Yang et al.   BIOINFORMATICS

A framework for oligonucleotide microarray preprocessing

(2010) Benilton S. Carvalho et al.   BIOINFORMATICS

JTK_CYCLE: An Efficient Nonparametric Algorithm for Detecting Rhythmic Components in Genome-Scale Data Sets

(2010) Michael E. Hughes et al.   JOURNAL OF BIOLOGICAL RHYTHMS

Sleep Timing and Circadian Phase in Delayed Sleep Phase Syndrome

(2009) Anne-Marie Chang et al.   JOURNAL OF BIOLOGICAL RHYTHMS

Harmonics of Circadian Gene Transcription in Mammals

(2009) Michael E. Hughes et al.   PLoS Genetics