Molecular Cell · 2023 · 264 citations · 86 references
Life SciencesGeneticsMolecular BiologyGene ExpressionTranscriptionTranscriptional RegulationGene Expression RegulationRna TranscriptionRna-binding ProteinsRna-protein InteractionsTranscription FactorsTranscriptional ControlRna-based Gene RegulationRna-binding Protein InteractionsTranscription Factor Interactions
86
Fiji: an open-source platform for biological-image analysis
Johannes Schindelin, Ignacio Arganda‐Carreras, Erwin Frise et al. · Nature Methods · 2012 · 70.9K citations
The Sequence Alignment/Map format and SAMtools
Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text
Fast gapped-read alignment with Bowtie 2
Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations
Cutadapt removes adapter sequences from high-throughput sequencing reads
Marcel Martin · EMBnet journal · 2011 · 35.8K citations · Full text
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan, Ira M. Hall · Bioinformatics · 2010 · 30.4K citations · Full text