110 citations · 115 across the 5 of their papers we have counts for
5 papers
Analysis of differential splicing suggests different modes of short-term splicing regulation
Hande Topa, Antti Honkela
Motivation: Alternative splicing is an important mechanism in which the regions of pre-mRNAs are differentially joined in order to form different transcript isoforms. Alternative s…
Genome-wide modelling of transcription kinetics reveals patterns of RNA production delays
Antti Honkela, Jaakko Peltonen, Hande Topa +7
Genes with similar transcriptional activation kinetics can display very different temporal mRNA profiles due to differences in transcription time, degradation rate and RNA processi…
Gaussian process test for high-throughput sequencing time series: application to experimental evolution
Hande Topa, Ágnes Jónás, Robert Kofler +2
Motivation: Recent advances in high-throughput sequencing (HTS) have made it possible to monitor genomes in great detail. New experiments not only use HTS to measure genomic featur…
A mixed model approach for joint genetic analysis of alternatively spliced transcript isoforms using RNA-Seq data
Barbara Rakitsch, Christoph Lippert, Hande Topa +3
RNA-Seq technology allows for studying the transcriptional state of the cell at an unprecedented level of detail. Beyond quantification of whole-gene expression, it is now possible…
Gaussian process modelling of multiple short time series
Hande Topa, Antti Honkela
We present techniques for effective Gaussian process (GP) modelling of multiple short time series. These problems are common when applying GP models independently to each gene in a…