Affiliation: Imperial College
Turro E, Lewin A, Rose A, Dallman M, Richardson S. MMBGX: a method for estimating expression at the isoform level and detecting differential splicing using whole-transcript Affymetrix arrays. Nucleic Acids Res. 2010;38:e4 pubmed publisher
..Finally, we show that our method for detecting differential splicing has a lower error rate than standard exon-level approaches on a previously validated colon cancer data set. ..
Turro E, Su S, Goncalves A, Coin L, Richardson S, Lewin A. Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads. Genome Biol. 2011;12:R13 pubmed publisher
..A new statistical method, MMSEQ, deconvolves the mapping of reads to multiple transcripts (isoforms or haplotype-specific isoforms). Our software can take into account non-uniform read generation and works with paired-end reads. ..
Turro E, Bochkina N, Hein A, Richardson S. BGX: a Bioconductor package for the Bayesian integrated analysis of Affymetrix GeneChips. BMC Bioinformatics. 2007;8:439 pubmed
..It has the advantage that it provides a statistically sound measure of uncertainty for its estimates. BGX includes various analysis functions to visualise and exploit the rich output that is produced by the Bayesian model. ..