Genome-wide identification, characterization and expression analysis of novel long non-coding RNAs that mediate IBA-induced adventitious root formation in apple rootstocks

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 · 16.5K citations

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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 · 12.9K citations · Full text

Life Sciences, Bioinformatics, Molecular Biology +12

Circos: An information aesthetic for comparative genomics

Martin Krzywinski, Jacqueline E. Schein, İnanç Birol et al. · Genome Research · 2009 · 11.9K citations · Full text

Life Sciences, Bioinformatics, Visualization +17

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

Thomas Derrien, Rory Johnson, Giovanni Bussotti et al. · Genome Research · 2012 · 5.2K citations · Full text

Life Sciences, Genetics, Molecular Biology +17

BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in Biological Networks

Steven Maere, K. Heymans, Martin Kuiper · Computer applications in the biosciences · 2005 · 4.3K citations · Full text

Life Sciences, Bioinformatics, Biology +10