Network-based integration of systems genetics data reveals pathways associated with lignocellulosic biomass accumulation and processing

Xylan decoration patterns and the plant secondary cell wall molecular architecture

(2016) M. Busse-Wicher et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Tools of the trade: studying molecular networks in plants

(2016) Sebastian Proost et al.   CURRENT OPINION IN PLANT BIOLOGY

Systems genetics of wood formation

(2016) Eshchar Mizrachi et al.   CURRENT OPINION IN PLANT BIOLOGY

Network-Based Analysis of eQTL Data to Prioritize Driver Mutations

(2016) Dries De Maeyer et al.   Genome Biology and Evolution

Discovering potential cancer driver genes by an integrated network-based approach

(2016) Kai Shi et al.   Molecular BioSystems

Combined large-scale phenotyping and transcriptomics in maize reveals a robust growth regulatory network

(2016) Joke Baute et al.   PLANT PHYSIOLOGY

Downregulation of GAUT12 in Populus deltoides by RNA silencing results in reduced recalcitrance, increased growth and reduced xylan and pectin in a woody biofuel feedstock

(2015) Ajaya K Biswal et al.   Biotechnology for Biofuels

High-resolution genetic mapping of allelic variants associated with cell wall chemistry in Populus

(2015) Wellington Muchero et al.   BMC GENOMICS

Mapping tree density at a global scale

(2015) T. W. Crowther et al.   NATURE

Genome-wide analysis of the lignin toolbox ofEucalyptus grandis

(2015) Victor Carocha et al.   NEW PHYTOLOGIST

A flexible multi-species genome-wide 60K SNP chip developed from pooled resequencing of 240Eucalyptustree genomes across 12 species

(2015) Orzenil B. Silva-Junior et al.   NEW PHYTOLOGIST

Genetic architecture of growth traits inPopulusrevealed by integrated quantitative trait locus (QTL) analysis and association studies

(2015) Qingzhang Du et al.   NEW PHYTOLOGIST

FERONIA receptor kinase interacts withS-adenosylmethionine synthetase and suppressesS-adenosylmethionine production and ethylene biosynthesis inArabidopsis

(2015) Dandan Mao et al.   PLANT CELL AND ENVIRONMENT

Pathway Relevance Ranking for Tumor Samples through Network-Based Data Integration

(2015) Lieven P. C. Verbeke et al.   PLoS One

Population genomics of Populus trichocarpa identifies signatures of selection and adaptive trait associations

(2014) Luke M Evans et al.   NATURE GENETICS

Expanding the computational toolbox for mining cancer genomes

(2014) Li Ding et al.   NATURE REVIEWS GENETICS

Investigating the molecular underpinnings underlying morphology and changes in carbon partitioning during tension wood formation inEucalyptus

(2014) Eshchar Mizrachi et al.   NEW PHYTOLOGIST

High-resolution genetic maps ofEucalyptusimproveEucalyptus grandisgenome assembly

(2014) Jérôme Bartholomé et al.   NEW PHYTOLOGIST

Genome-wide association implicates numerous genes underlying ecological trait variation in natural populations ofPopulus trichocarpa

(2014) Athena D. McKown et al.   NEW PHYTOLOGIST

Systems genetics: A paradigm to improve discovery of candidate genes and mechanisms underlying complex traits

(2014) F. Alex Feltus   PLANT SCIENCE

RNA-Seq Using Two Populations Reveals Genes and Alleles Controlling Wood Traits and Growth in Eucalyptus nitens

(2014) Saravanan Thavamanikumar et al.   PLoS One

Lignin Valorization: Improving Lignin Processing in the Biorefinery

(2014) A. J. Ragauskas et al.   SCIENCE

EPSILON: an eQTL prioritization framework using similarity measures derived from local networks

(2013) Lieven P. C. Verbeke et al.   BIOINFORMATICS

Xylan biosynthesis

(2013) Emilie A Rennie et al.   CURRENT OPINION IN BIOTECHNOLOGY

Network-assisted analysis to prioritize GWAS results: principles, methods and perspectives

(2013) Peilin Jia et al.   HUMAN GENETICS

A 34K SNP genotyping array forPopulus trichocarpa: Design, application to the study of natural populations and transferability to otherPopulusspecies

(2013) A. Geraldes et al.   Molecular Ecology Resources

Network analysis reveals the relationship among wood properties, gene expression levels and genotypes of naturalPopulus trichocarpaaccessions

(2013) Ilga Porth et al.   NEW PHYTOLOGIST

Moving beyond photosynthesis: from carbon source to sink-driven vegetation modeling

(2013) Simone Fatichi et al.   NEW PHYTOLOGIST

Genome-wide association mapping for wood characteristics inPopulusidentifies an array of candidate single nucleotide polymorphisms

(2013) Ilga Porth et al.   NEW PHYTOLOGIST

Navigating the transcriptional roadmap regulating plant secondary cell wall deposition

(2013) Steven G. Hussey et al.   Frontiers in Plant Science

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Genetic dissection of growth, wood basic density and gene expression in interspecific backcrosses of Eucalyptus grandis and E. urophylla

(2012) Anand Raj Kullan et al.   BMC GENETICS

A reference linkage map for Eucalyptus

(2012) Corey J Hudson et al.   BMC GENOMICS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

An experimental investigation of kernels on graphs for collaborative recommendation and semisupervised classification

(2012) François Fouss et al.   NEURAL NETWORKS

A Systems Biology View of Responses to Lignin Biosynthesis Perturbations in Arabidopsis

(2012) R. Vanholme et al.   PLANT CELL

SND2, a NAC transcription factor gene, regulates genes involved in secondary cell wall development in Arabidopsis fibres and increases fibre cell area in Eucalyptus

(2011) Steven G Hussey et al.   BMC PLANT BIOLOGY

Cellulose factories: advancing bioenergy production from forest trees

(2011) Eshchar Mizrachi et al.   NEW PHYTOLOGIST

High-density genetic linkage maps with over 2,400 sequence-anchored DArT markers for genetic dissection in an F2 pseudo-backcross of Eucalyptus grandis × E. urophylla

(2011) Anand Raj Kumar Kullan et al.   Tree Genetics & Genomes

How could forest trees play an important role as feedstock for bioenergy production?

(2011) Armand Séguin   Current Opinion in Environmental Sustainability

Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem

(2010) Jill L. Wegrzyn et al.   NEW PHYTOLOGIST

Association genetics of complex traits in plants

(2010) Pär K. Ingvarsson et al.   NEW PHYTOLOGIST

Solutions for dissolution—engineering cell walls for deconstruction

(2009) Shawn D Mansfield   CURRENT OPINION IN BIOTECHNOLOGY

Revisiting the transition between juvenile and mature wood: a comparison of fibre length, microfibril angle and relative wood density in lodgepole pine

(2009) Shawn D. Mansfield et al.   HOLZFORSCHUNG

Short-rotation woody crops for bioenergy and biofuels applications

(2009) Maud Hinchee et al.   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT

Quantitative trait locus (QTL) analysis of wood quality traits in Eucalyptus nitens

(2009) Bala R. Thumma et al.   Tree Genetics & Genomes

Gene expression inEucalyptusbranch wood with marked variation in cellulose microfibril orientation and lacking G-layers

(2008) Deyou Qiu et al.   NEW PHYTOLOGIST

Improvement of biomass through lignin modification

(2008) Xu Li et al.   PLANT JOURNAL

Forests and Climate Change: Forcings, Feedbacks, and the Climate Benefits of Forests

(2008) G. B. Bonan   SCIENCE