5 Result(s)

Article

A computational survey of candidate exonic splicing enhancer motifs in the model plant Arabidopsis thaliana

Algorithmic approaches to splice site prediction have relied mainly on the consensus patterns found at the boundaries between protein coding and non-coding regions. However exonic splicing enhancers have been ...

Mihaela Pertea, Stephen M Mount, Steven L Salzberg in BMC Bioinformatics (2007)

Article

Features generated for computational splice-site prediction correspond to functional elements

Accurate selection of splice sites during the splicing of precursors to messenger RNA requires both relatively well-characterized signals at the splice sites and auxiliary signals in the adjacent exons and int...

Rezarta Islamaj Dogan, Lise Getoor, W John Wilbur, Stephen M Mount in BMC Bioinformatics (2007)

Article

Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm

Clustering protein sequences according to inferred homology is a fundamental step in the analysis of many large data sets. Since the publication of the Markov Clustering (MCL) algorithm in 2002, it has been th...

Theodore R. Gibbons, Stephen M. Mount, Endymion D. Cooper… in BMC Bioinformatics (2015)

Article

Erratum to: Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm

Theodore R. Gibbons, Stephen M. Mount, Endymion D. Cooper… in BMC Bioinformatics (2015)

Article

Yanagi: Fast and interpretable segment-based alternative splicing and gene expression analysis

Ultra-fast pseudo-alignment approaches are the tool of choice in transcript-level RNA sequencing (RNA-seq) analyses. Unfortunately, these methods couple the tasks of pseudo-alignment and transcript quantificat...

Mohamed K Gunady, Stephen M Mount, Héctor Corrada Bravo in BMC Bioinformatics (2019)