Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions
Published 2019 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions
Authors
Keywords
-
Journal
Nature Communications
Volume 10, Issue 1, Pages -
Publisher
Springer Nature
Online
2019-04-05
DOI
10.1038/s41467-019-09522-1
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants
- (2018) Kranthi Varala et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A NIGT1-centred transcriptional cascade regulates nitrate signalling and incorporates phosphorus starvation signals in Arabidopsis
- (2018) Yoshie Maeda et al. Nature Communications
- Nitrogen Limitation Alters the Response of Specific Genes to Biotic Stress
- (2018) Mahsa Farjad et al. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
- Transcriptional regulation of nitrogen-associated metabolism and growth
- (2018) Allison Gaudinier et al. NATURE
- CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping
- (2017) Shelly A Trigg et al. NATURE METHODS
- Dynamic chromatin technologies: from individual molecules to epigenomic regulation in cells
- (2017) Olivier Cuvier et al. NATURE REVIEWS GENETICS
- agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update
- (2017) Tian Tian et al. NUCLEIC ACIDS RESEARCH
- RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections
- (2017) Jaime Abraham Castro-Mondragon et al. NUCLEIC ACIDS RESEARCH
- JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework
- (2017) Aziz Khan et al. NUCLEIC ACIDS RESEARCH
- Nitrate induction of root hair density is mediated by TGA1/TGA4 and CPC transcription factors in Arabidopsis thaliana
- (2017) Javier Canales et al. PLANT JOURNAL
- “Hit-and-Run” transcription: de novo transcription initiated by a transient bZIP1 “hit” persists after the “run”
- (2016) Joan Doidy et al. BMC GENOMICS
- Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape
- (2016) Ronan C. O’Malley et al. CELL
- Establishment of Expression in the SHORTROOT-SCARECROW Transcriptional Cascade through Opposing Activities of Both Activators and Repressors
- (2016) Erin E. Sparks et al. DEVELOPMENTAL CELL
- Induced Genome-Wide Binding of Three Arabidopsis WRKY Transcription Factors during Early MAMP-Triggered Immunity
- (2016) Rainer P. Birkenbihl et al. PLANT CELL
- A transcription factor hierarchy defines an environmental stress response network
- (2016) L. Song et al. SCIENCE
- Combinatorial interaction network of transcriptomic and phenotypic responses to nitrogen and hormones in the Arabidopsis thaliana root
- (2016) D. Ristova et al. Science Signaling
- Combinatorial interaction network of transcriptomic and phenotypic responses to nitrogen and hormones in the Arabidopsis thaliana root
- (2016) D. Ristova et al. Science Signaling
- An experimentally supported model of the Bacillus subtilis global transcriptional regulatory network
- (2015) M. L. Arrieta-Ortiz et al. Molecular Systems Biology
- From milliseconds to lifetimes: tracking the dynamic behavior of transcription factors in gene networks
- (2015) Ying Li et al. TRENDS IN GENETICS
- Gene Networks in Plant Biology: Approaches in Reconstruction and Analysis
- (2015) Yupeng Li et al. TRENDS IN PLANT SCIENCE
- AtNIGT1/HRS1 integrates nitrate and phosphate signals at the Arabidopsis root tip
- (2015) Anna Medici et al. Nature Communications
- Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity
- (2014) Matthew T. Weirauch et al. CELL
- Structural Basis for DNA Binding Specificity by the Auxin-Dependent ARF Transcription Factors
- (2014) D. Roeland Boer et al. CELL
- ArabidopsisEnsemble Reverse-Engineered Gene Regulatory Network Discloses Interconnected Transcription Factors in Oxidative Stress
- (2014) Vanessa Vermeirssen et al. PLANT CELL
- Systems approach identifies TGA1 and TGA4 transcription factors as important regulatory components of the nitrate response ofArabidopsis thalianaroots
- (2014) José M. Alvarez et al. PLANT JOURNAL
- 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
- Transcription factors: specific DNA binding and specific gene regulation
- (2014) Anne-Laure Todeschini et al. TRENDS IN GENETICS
- Mapping and Dynamics of Regulatory DNA and Transcription Factor Networks in A. thaliana
- (2014) Alessandra M. Sullivan et al. Cell Reports
- A Genome-Scale Resource for the Functional Characterization of Arabidopsis Transcription Factors
- (2014) Jose L. Pruneda-Paz et al. Cell Reports
- TARGET: A Transient Transformation System for Genome-Wide Transcription Factor Target Discovery
- (2013) Bastiaan O.R. Bargmann et al. Molecular Plant
- Nuclear retention of the transcription factor NLP7 orchestrates the early response to nitrate in plants
- (2013) Chloé Marchive et al. Nature Communications
- Harnessing Diversity towards the Reconstructing of Large Scale Gene Regulatory Networks
- (2013) Takeshi Hase et al. PLoS Computational Biology
- Software for Computing and Annotating Genomic Ranges
- (2013) Michael Lawrence et al. PLoS Computational Biology
- TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
- (2013) Daehwan Kim et al. GENOME BIOLOGY
- Genome-wide protein–DNA binding dynamics suggest a molecular clutch for transcription factor function
- (2012) Colin R. Lickwar et al. NATURE
- Architecture of the human regulatory network derived from ENCODE data
- (2012) Mark B. Gerstein et al. NATURE
- Wisdom of crowds for robust gene network inference
- (2012) Daniel Marbach et al. NATURE METHODS
- Evidence for Network Evolution in an Arabidopsis Interactome Map
- (2011) et al. SCIENCE
- Predictive network modeling of the high-resolution dynamic plant transcriptome in response to nitrate
- (2011) Gabriel Krouk et al. GENOME BIOLOGY
- Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data
- (2010) Robert C McLeay et al. BMC BIOINFORMATICS
- Enhanced CHO Cell-Based Transient Gene Expression with the Epi-CHO Expression System
- (2010) Joe Codamo et al. MOLECULAR BIOTECHNOLOGY
- A Yeast Synthetic Network for In Vivo Assessment of Reverse-Engineering and Modeling Approaches
- (2009) Irene Cantone et al. CELL
- MEME SUITE: tools for motif discovery and searching
- (2009) T. L. Bailey et al. NUCLEIC ACIDS RESEARCH
- Members of the LBD Family of Transcription Factors Repress Anthocyanin Synthesis and Affect Additional Nitrogen Responses in Arabidopsis
- (2009) G. Rubin et al. PLANT CELL
- Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells
- (2008) Xi Chen et al. CELL
- LZF1/SALT TOLERANCE HOMOLOG3, an Arabidopsis B-Box Protein Involved in Light-Dependent Development and Gene Expression, Undergoes COP1-Mediated Ubiquitination
- (2008) S. Datta et al. PLANT CELL
- The nodule inception-like protein 7 modulates nitrate sensing and metabolism in Arabidopsis
- (2008) Loren Castaings et al. PLANT JOURNAL
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreAdd your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload Now