ArticleNucleic acids research2014
A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
47 citing papers in PubMed, 1 synthesis or guideline pooled it.
- A Comparative Transcriptomic Meta-Analysis Revealed Conserved Key Genes and Regulatory Networks Involved in Drought Tolerance in Cereal Crops.International journal of molecular sciences · 2021Pooled it
- The GmPRL1b-GmST2-GmAOC3/4 Module Confers Salt Tolerance and Botrytis cinerea Resistance by Inducing Jasmonic Acid Biosynthesis in Soybean.Plant biotechnology journal · 2025Article
- OsNTL2 confers rice osmotic stress resilience through coordinated transcriptional regulation of the ASC-GSH redox cycle and cell wall biosynthesis.Stress biology · 2025Article
- The specificity landscape of WRKY transcription factors reveals the bidirectional influence of non-CG methylation.Nucleic acids research · 2025Article
- Temporal regulation of gene expression during auxin-triggered crown root formation in barley: an integrated approach.Plant & cell physiology · 2025Article
- A NAC family geneHorticulture research · 2025Article
- AcNAC10, regulated by AcTGA07, enhances kiwifruit resistance to Pseudomonas syringae pv. actinidiae via inhibiting jasmonic acid pathway.Molecular horticulture · 2025Article
- Autosuppression of MdNAC18.1 endowed by a 61-bp promoter fragment duplication delays maturity date in apple.Plant biotechnology journal · 2025Article
- Article
- Genome-Wide Transcriptional Response of Avocado toPlants (Basel, Switzerland) · 2024Article
- A CUC1/auxin genetic module links cell polarity to patterned tissue growth and leaf shape diversity in crucifer plants.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Expression of the Arabidopsis redox-related LEA protein, SAG21 is regulated by ERF, NAC and WRKY transcription factors.Scientific reports · 2024Article
- Genome-wide identification, evolution, and expression analysis of the NAC gene family in chestnut (Frontiers in genetics · 2024Article
- Structural basis of DNA binding by the NAC transcription factor ORE1, a master regulator of plant senescence.Plant communications · 2023Article
- SlMIR164A regulates fruit ripening and quality by controlling SlNAM2 and SlNAM3 in tomato.Plant biotechnology journal · 2022Article
- The nitrate-inducible NAC transcription factor NAC056 controls nitrate assimilation and promotes lateral root growth in Arabidopsis thaliana.PLoS genetics · 2022Article
- Postharvest chilling diminishes melon flavorFrontiers in plant science · 2022Article
- Genome-wide characterization of NAC transcription factors inFrontiers in plant science · 2022Article
- Profiling of transcriptional regulators associated with starch biosynthesis in sorghum (Frontiers in plant science · 2022Article
- An expanded role for the transcription factorFrontiers in plant science · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Target gene identification for transcription factors is a prerequisite for the systems wide understanding of organismal behaviour. NAM-ATAF1/2-CUC2 (NAC) transcription factors are amongst the largest transcription factor families in plants, yet limited data exist from unbiased approaches to resolve the DNA-binding preferences of individual members. Here, we present a TF-target gene identification workflow based on the integration of novel protein binding microarray data with gene expression and multi-species promoter sequence conservation to identify the DNA-binding specificities and the gene regulatory networks of 12 NAC transcription factors. Our data offer specific single-base resolution fingerprints for most TFs studied and indicate that NAC DNA-binding specificities might be predicted from their DNA-binding domain's sequence. The developed methodology, including the application of complementary functional genomics filters, makes it possible to translate, for each TF, protein binding microarray data into a set of high-quality target genes. With this approach, we confirm NAC target genes reported from independent in vivo analyses. We emphasize that candidate target gene sets together with the workflow associated with functional modules offer a strong resource to unravel the regulatory potential of NAC genes and that this workflow could be used to study other families of transcription factors.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.