ImpulseDE: detection of differentially expressed genes in time series data using impulse models

High-Resolution Chromatin Dynamics during a Yeast Stress Response

(2015) Assaf Weiner et al.   MOLECULAR CELL

Dynamic profiling of the protein life cycle in response to pathogens

(2015) M. Jovanovic et al.   SCIENCE

Methods for time series analysis of RNA-seq data with application to human Th17 cell differentiation

(2014) Tarmo Äijö et al.   BIOINFORMATICS

High-Resolution Sequencing and Modeling Identifies Distinct Dynamic RNA Regulatory Strategies

(2014) Michal Rabani et al.   CELL

Single-cell RNA-seq reveals dynamic paracrine control of cellular variation

(2014) Alex K. Shalek et al.   NATURE

Chromatin state dynamics during blood formation

(2014) D. Lara-Astiaso et al.   SCIENCE

A method to identify differential expression profiles of time-course gene data with Fourier transformation

(2013) Jaehee Kim et al.   BMC BIOINFORMATICS

A comparison of methods for differential expression analysis of RNA-seq data

(2013) Charlotte Soneson et al.   BMC BIOINFORMATICS

Dynamic regulatory network controlling TH17 cell differentiation

(2013) Nir Yosef et al.   NATURE

A Validated Regulatory Network for Th17 Cell Specification

(2012) Maria Ciofani et al.   CELL

Studying and modelling dynamic biological processes using time-series gene expression data

(2012) Ziv Bar-Joseph et al.   NATURE REVIEWS GENETICS

Impulse Control: Temporal Dynamics in Gene Transcription

(2011) Nir Yosef et al.   CELL

Gene Expression Profiles Identify Inflammatory Signatures in Dendritic Cells

(2010) Anna Torri et al.   PLoS One

RNA-Seq gene expression estimation with read mapping uncertainty

(2009) Bo Li et al.   BIOINFORMATICS

Timing of Gene Expression Responses to Environmental Changes

(2009) Gal Chechik et al.   JOURNAL OF COMPUTATIONAL BIOLOGY