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Chapter and Conference Paper
Reconstructing Gene Networks of Forest Trees from Gene Expression Data: Toward Higher-Resolution Approaches
In two of our recent systems biology studies of forest trees we reconstructed gene networks active in wood tissue development for an undomesticated tree genus, Populus. In the first study, we used time series dat...
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Book
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Protocol
Immunolocalization in Secondary Xylem of Populus
Immunolocalization can be used to precisely visualize the location of specific proteins, cell wall components, or any other molecules within cells or tissues for which specific antibodies are available. Here w...
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Article
Open AccessGenome-wide map** of histone H3 lysine 4 trimethylation in Eucalyptus grandis develo** xylem
Histone modifications play an integral role in plant development, but have been poorly studied in woody plants. Investigating chromatin organization in wood-forming tissue and its role in regulating gene expre...
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Article
Open AccessEvaluation of experimental design and computational parameter choices affecting analyses of ChIP-seq and RNA-seq data in undomesticated poplar trees
One of the great advantages of next generation sequencing is the ability to generate large genomic datasets for virtually all species, including non-model organisms. It should be possible, in turn, to apply ad...
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Chapter
Comparative and Evolutionary Genomics of Forest Trees
Comparative and evolutionary genomic approaches can identify genes regulating biological processes, and describe how those genes have been modified through speciation to produce phenotypic variation. These app...
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Book
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Article
Insertional mutagenesis in Populus: relevance and feasibility
The recent sequencing of the first tree genome, that of the black cottonwood (Populus trichocarpa), opens a new chapter in tree functional genomics. While the completion of the genome is a milestone, mobilizing t...
