Comparative transcriptome analysis between aquatic and aerial breathing organs of Channa argus to reveal the genetic basis underlying bimodal respiration

The Sequence Alignment/Map format and SAMtools

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Fast gapped-read alignment with Bowtie 2

Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 58.3K citations · Full text

Long-read Sequencing, Sequence Assembly, Natural Sciences +7

<tt>edgeR</tt> : a Bioconductor package for differential expression analysis of digital gene expression data

Mark D. Robinson, Davis J. McCarthy, Gordon K. Smyth · Bioinformatics · 2009 · 42.7K citations · Full text

Full-length transcriptome assembly from RNA-Seq data without a reference genome

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Long-read Sequencing, Functional Genomics, Natural Sciences +12

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

Weizhong Li, Adam Godzik · Bioinformatics · 2006 · 11.6K citations · Full text

Cluster Computing, Engineering, Molecular Biology +23