Integrative inference of transcriptional networks in Arabidopsis yields novel ROS signalling regulators
Gene regulation is a dynamic process in which transcription factors (TFs) play an important
role in controlling spatiotemporal gene expression. To enhance our global understanding of …
role in controlling spatiotemporal gene expression. To enhance our global understanding of …
TF2Network: predicting transcription factor regulators and gene regulatory networks in Arabidopsis using publicly available binding site information
SR Kulkarni, D Vaneechoutte… - Nucleic acids …, 2018 - academic.oup.com
A gene regulatory network (GRN) is a collection of regulatory interactions between
transcription factors (TFs) and their target genes. GRNs control different biological processes …
transcription factors (TFs) and their target genes. GRNs control different biological processes …
Specificity in ROS signaling and transcript signatures
L Vaahtera, M Brosche, M Wrzaczek… - Antioxidants & redox …, 2014 - liebertpub.com
Significance: Reactive oxygen species (ROS), important signaling molecules in plants, are
involved in developmental control and stress adaptation. ROS production can trigger broad …
involved in developmental control and stress adaptation. ROS production can trigger broad …
ConnecTF: A platform to integrate transcription factor–gene interactions and validate regulatory networks
Deciphering gene regulatory networks (GRNs) is both a promise and challenge of systems
biology. The promise lies in identifying key transcription factors (TFs) that enable an …
biology. The promise lies in identifying key transcription factors (TFs) that enable an …
Inference of plant gene regulatory networks using data-driven methods: A practical overview
SR Kulkarni, K Vandepoele - Biochimica et Biophysica Acta (BBA)-Gene …, 2020 - Elsevier
Transcriptional regulation is a complex and dynamic process that plays a vital role in plant
growth and development. A key component in the regulation of genes is transcription factors …
growth and development. A key component in the regulation of genes is transcription factors …
Gene regulatory network inference: connecting plant biology and mathematical modeling
Plant responses to environmental and intrinsic signals are tightly controlled by multiple
transcription factors (TFs). These TFs and their regulatory connections form gene regulatory …
transcription factors (TFs). These TFs and their regulatory connections form gene regulatory …
Transcriptomic footprints disclose specificity of reactive oxygen species signaling in Arabidopsis
I Gadjev, S Vanderauwera, TS Gechev, C Laloi… - Plant …, 2006 - academic.oup.com
Reactive oxygen species (ROS) are key players in the regulation of plant development,
stress responses, and programmed cell death. Previous studies indicated that depending on …
stress responses, and programmed cell death. Previous studies indicated that depending on …
Quantitative ROS bioreporters: A robust toolkit for studying biological roles of ROS in response to abiotic and biotic stresses
While the accumulation of reactive oxygen species (ROS) through spontaneous generation
or as the by‐products of aerobic metabolism can be toxic to plants, recent findings …
or as the by‐products of aerobic metabolism can be toxic to plants, recent findings …
Stress signaling III: reactive oxygen species (ROS)
M Brosché, K Overmyer, M Wrzaczek… - Abiotic stress adaptation …, 2010 - Springer
Previously regarded merely as damaging agents, reactive oxygen species (ROS) are now
understood as important signal molecules vital to normal plant growth. This tutorial review …
understood as important signal molecules vital to normal plant growth. This tutorial review …
A machine learning approach to predict gene regulatory networks in seed development in Arabidopsis
Y Ni, D Aghamirzaie, H Elmarakeby… - Frontiers in plant …, 2016 - frontiersin.org
Gene regulatory networks (GRNs) provide a representation of relationships between
regulators and their target genes. Several methods for GRN inference, both unsupervised …
regulators and their target genes. Several methods for GRN inference, both unsupervised …