Genome-wide identification and characterization of putative lncRNAs in the diamondback moth, Plutella xylostella (L.)

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

Life Sciences, Cell Biology, Molecular Biology +16

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

TopHat: discovering splice junctions with RNA-Seq

Cole Trapnell, Lior Pachter, Steven L. Salzberg · Bioinformatics · 2009 · 12.1K citations · Full text

Life Sciences, Bioinformatics, Molecular Biology +16

starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data

Jun-Hao Li, Shun Liu, Hui Zhou et al. · Nucleic Acids Research · 2013 · 6K citations · Full text

Life Sciences, Bioinformatics, Molecular Biology +16

KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

Chen Xie, Xizeng Mao, Jiaju Huang et al. · Nucleic Acids Research · 2011 · 5.5K citations · Full text

Life Sciences, Bioinformatics, Genetics +15