The Plant Cell · 2019 · 169 citations · 102 references
Life SciencesMolecular BiologyPlant SciencesGene ExpressionTranscriptional RegulationTranscriptomicsGene Regulatory ElementsPlant EpigeneticsPlant Gene ExpressionPlant Transcriptional RegulationTranscription FactorsTranscriptional Regulation In EukaryotesCell Wall DevelopmentChromatin OrganizationNac Transcription FactorsQuantitative TranscriptomicsTrans-regulatory EffectsTranscription Factor Binding SitesTranscription Factor FamiliesTranscriptional Regulatory Networks
and verified that ∼90% of the tested interactions function in vivo. The TRN reveals common transregulatory targets for distinct TFs, leading to the discovery of nine TF protein complexes (dimers and trimers) implicated in regulating the biosynthesis of specific types of lignin. Our work suggests that wood formation may involve regulatory homeostasis determined by combinations of TF-DNA and TF-TF (protein-protein) regulations.
102
TopHat: discovering splice junctions with RNA-Seq
Cole Trapnell, Lior Pachter, Steven L. Salzberg · Bioinformatics · 2009 · 12.1K citations · Full text
Phytozome: a comparative platform for green plant genomics
David Goodstein, Shengqiang Shu, Russell W. Howson et al. · Nucleic Acids Research · 2011 · 5.8K citations · Full text
Transcriptional Regulatory Networks in <i>Saccharomyces cerevisiae</i>
Tong Ihn Lee, Nicola J. Rinaldi, François Robert et al. · Science · 2002 · 3K citations