Redefining fine roots improves understanding of below‐ground contributions to terrestrial biosphere processes

ML McCormack, IA Dickie, DM Eissenstat… - New …, 2015 - Wiley Online Library
Fine roots acquire essential soil resources and mediate biogeochemical cycling in terrestrial
ecosystems. Estimates of carbon and nutrient allocation to build and maintain these …

Mechanism of salinity tolerance in plants: physiological, biochemical, and molecular characterization

B Gupta, B Huang - International journal of genomics, 2014 - Wiley Online Library
Salinity is a major abiotic stress limiting growth and productivity of plants in many areas of
the world due to increasing use of poor quality of water for irrigation and soil salinization …

WGCNA: an R package for weighted correlation network analysis

P Langfelder, S Horvath - BMC bioinformatics, 2008 - Springer
Background Correlation networks are increasingly being used in bioinformatics applications.
For example, weighted gene co-expression network analysis is a systems biology method …

Plant molecular stress responses face climate change

I Ahuja, RCH de Vos, AM Bones, RD Hall - Trends in plant science, 2010 - cell.com
Environmental stress factors such as drought, elevated temperature, salinity and rising CO 2
affect plant growth and pose a growing threat to sustainable agriculture. This has become a …

Is my network module preserved and reproducible?

P Langfelder, R Luo, MC Oldham… - PLoS computational …, 2011 - journals.plos.org
In many applications, one is interested in determining which of the properties of a network
module change across conditions. For example, to validate the existence of a module, it is …

Simultaneous application of heat, drought, and virus to Arabidopsis plants reveals significant shifts in signaling networks

CM Prasch, U Sonnewald - Plant physiology, 2013 - academic.oup.com
Considering global climate change, the incidence of combined drought and heat stress is
likely to increase in the future and will considerably influence plant-pathogen interactions …

Research on plant abiotic stress responses in the post‐genome era: past, present and future

T Hirayama, K Shinozaki - The plant journal, 2010 - Wiley Online Library
Understanding abiotic stress responses in plants is an important and challenging topic in
plant research. Physiological and molecular biological analyses have allowed us to draw a …

Transcriptome responses to combinations of stresses in Arabidopsis

S Rasmussen, P Barah, MC Suarez-Rodriguez… - Plant …, 2013 - academic.oup.com
Biotic and abiotic stresses limit agricultural yields, and plants are often simultaneously
exposed to multiple stresses. Combinations of stresses such as heat and drought or cold …

Effects of abiotic stress on plants: a systems biology perspective

GR Cramer, K Urano, S Delrot, M Pezzotti… - BMC plant biology, 2011 - Springer
The natural environment for plants is composed of a complex set of abiotic stresses and
biotic stresses. Plant responses to these stresses are equally complex. Systems biology …

Strategies for aggregating gene expression data: the collapseRows R function

JA Miller, C Cai, P Langfelder, DH Geschwind… - BMC …, 2011 - Springer
Background Genomic and other high dimensional analyses often require one to summarize
multiple related variables by a single representative. This task is also variously referred to as …