“Hit-and-Run” transcription: de novo transcription initiated by a transient bZIP1 “hit” persists after the “run”

“Hit-and-run”: Transcription factors get caught in the act

(2015) Varodom Charoensawan et al.   BIOESSAYS

“Hit-and-Run” leaves its mark: Catalyst transcription factors and chromatin modification

(2015) Kranthi Varala et al.   BIOESSAYS

Crosstalk between Two bZIP Signaling Pathways Orchestrates Salt-Induced Metabolic Reprogramming in Arabidopsis Roots

(2015) Laura Hartmann et al.   PLANT CELL

The Elucidation of the Interactome of 16 Arabidopsis bZIP Factors Reveals Three Independent Functional Networks

(2015) Carles Marco Llorca et al.   PLoS One

From milliseconds to lifetimes: tracking the dynamic behavior of transcription factors in gene networks

(2015) Ying Li et al.   TRENDS IN GENETICS

AtNIGT1/HRS1 integrates nitrate and phosphate signals at the Arabidopsis root tip

(2015) Anna Medici et al.   Nature Communications

Applying thiouracil tagging to mouse transcriptome analysis

(2014) Leslie Gay et al.   Nature Protocols

Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis

(2014) A. Para et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA-binding specificities of plant transcription factors and their potential to define target genes

(2014) José M. Franco-Zorrilla et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Earliest Transcribed Zygotic Genes Are Short, Newly Evolved, and Different across Species

(2014) Patricia Heyn et al.   Cell Reports

Systems analysis of transcriptome data provides new hypotheses about Arabidopsis root response to nitrate treatments

(2014) Javier Canales et al.   Frontiers in Plant Science

Direct measurement of transcription rates reveals multiple mechanisms for configuration of the Arabidopsis ambient temperature response

(2014) Kate Sidaway-Lee et al.   GENOME BIOLOGY

TARGET: A Transient Transformation System for Genome-Wide Transcription Factor Target Discovery

(2013) Bastiaan O.R. Bargmann et al.   Molecular Plant

Arabidopsis NIN-like transcription factors have a central role in nitrate signalling

(2013) Mineko Konishi et al.   Nature Communications

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Genetic dissection of methylcrotonyl CoA carboxylase indicates a complex role for mitochondrial leucine catabolism during seed development and germination

(2011) Geng Ding et al.   PLANT JOURNAL

Rapid, Organ-Specific Transcriptional Responses to Light Regulate Photomorphogenic Development in Dicot Seedlings

(2011) Y. Li et al.   PLANT PHYSIOLOGY

Predictive network modeling of the high-resolution dynamic plant transcriptome in response to nitrate

(2011) Gabriel Krouk et al.   GENOME BIOLOGY

Modeling the global effect of the basic-leucine zipper transcription factor 1 (bZIP1) on nitrogen and light regulation in Arabidopsis

(2010) Mariana Obertello et al.   BMC Systems Biology

The Arabidopsis bZIP1 Transcription Factor Is Involved in Sugar Signaling, Protein Networking, and DNA Binding

(2010) Shin Gene Kang et al.   Molecular Plant

agriGO: a GO analysis toolkit for the agricultural community

(2010) Zhou Du et al.   NUCLEIC ACIDS RESEARCH

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Positive Fluorescent Selection Permits Precise, Rapid, and In-Depth Overexpression Analysis in Plant Protoplasts

(2009) B. O.R. Bargmann et al.   PLANT PHYSIOLOGY

VirtualPlant: A Software Platform to Support Systems Biology Research

(2009) M. S. Katari et al.   PLANT PHYSIOLOGY

Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

(2008) Anton Valouev et al.   NATURE METHODS

Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1

(2008) R. A. Gutierrez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay

(2008) L. Dolken et al.   RNA