The role of zinc in the adaptive evolution of polar phytoplankton

Trimmomatic: a flexible trimmer for Illumina sequence data

Anthony Bolger, Marc Lohse, Björn Usadel · Bioinformatics · 2014 · 66.2K citations · Full text

A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences

Journal of Molecular Evolution · 1980 · 29.4K citations

Biology, Phylogenetics, Molecular Ecology +15

PAML 4: Phylogenetic Analysis by Maximum Likelihood

Molecular Biology and Evolution · 2007 · 14.3K citations · Full text

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Daehwan Kim, Geo Pertea, Cole Trapnell et al. · Genome biology · 2013 · 13.4K citations · Full text

Bioinformatics, Gene Sequence Annotation, Natural Sciences +14

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

Cole Trapnell, Adam Roberts, Loyal A. Goff et al. · Nature Protocols · 2012 · 12.6K citations · Full text

Differential Gene, Natural Sciences, Genetics +11