Genome-wide identification and characterization of aquaporin gene family in common bean (Phaseolus vulgaris L.)

BEDTools: a flexible suite of utilities for comparing genomic features

Aaron R. Quinlan, Ira M. Hall · Bioinformatics · 2010 · 28.9K citations · Full text

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

Cole Trapnell, Brian A. Williams, Geo Pertea et al. · Nature Biotechnology · 2010 · 16.1K citations

Developmental Biology, Functional Genomics, Rna Biology +10

Predicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen

Anders Krogh, B. Larsson, Gunnar von Heijne et al. · Journal of Molecular Biology · 2001 · 12.7K citations

Functional Genomics, Engineering, Structural Bioinformatics +14

TopHat: discovering splice junctions with RNA-Seq

Cole Trapnell, Lior Pachter, Steven L. Salzberg · Bioinformatics · 2009 · 12K citations · Full text

EMBOSS: The European Molecular Biology Open Software Suite

Peter Rice, Ian Longden, Alan J. Bleasby · Trends in Genetics · 2000 · 9.7K citations

Functional Genomics, Biological Database, Bioinformatics Database +6