ArticlePloS one2017
SeqEnrich: A tool to predict transcription factor networks from co-expressed Arabidopsis and Brassica napus gene sets.
Article in PloS one, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Dual RNA sequencing reveals the transcriptomic and cellular response of Cannabis sativa to infection by the fungal pathogen Sclerotinia sclerotiorum.Scientific reports · 2026Article
- Gene expression landscape of the Brassica napus seed reveals subgenome bias in both space and time.Plant physiology · 2025Article
- Control of white mold (Sclerotinia sclerotiorum) through plant-mediated RNA interference.Scientific reports · 2023Article
- Article
- Host induced gene silencing of the Sclerotinia sclerotiorum ABHYDROLASE-3 gene reduces disease severity in Brassica napus.PloS one · 2022Article
- Unleashing the power within short-read RNA-seq for plant research: Beyond differential expression analysis and toward regulomics.Frontiers in plant science · 2022Review
- FRUITFULL Is a Repressor of Apical Hook Opening inInternational journal of molecular sciences · 2020Article
- RNA-Seq Highlights Molecular Events Associated With Impaired Pollen-Pistil Interactions Following Short-Term Heat Stress inFrontiers in plant science · 2020Article
- Transcriptome and organellar sequencing highlights the complex origin and diversification of allotetraploid Brassica napus.Nature communications · 2019Article
- Dissecting R gene and host genetic background effect on the Brassica napus defense response to Leptosphaeria maculans.Scientific reports · 2019Article
- Extrachloroplastic PP7L Functions in Chloroplast Development and Abiotic Stress Tolerance.Plant physiology · 2019Article
- An Integrative Approach to Analyze Seed Germination inFrontiers in plant science · 2019Article
- Identification and application of exogenous dsRNA confers plant protection against Sclerotinia sclerotiorum and Botrytis cinerea.Scientific reports · 2018Article
- RNA sequencing of Brassica napus reveals cellular redox control of Sclerotinia infection.Journal of experimental botany · 2017Article
Corrections and comments
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Authors and funding
4 authors.
Funding
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Abstract
Transcription factors and their associated DNA binding sites are key regulatory elements of cellular differentiation, development, and environmental response. New tools that predict transcriptional regulation of biological processes are valuable to researchers studying both model and emerging-model plant systems. SeqEnrich predicts transcription factor networks from co-expressed Arabidopsis or Brassica napus gene sets. The networks produced by SeqEnrich are supported by existing literature and predicted transcription factor-DNA interactions that can be functionally validated at the laboratory bench. The program functions with gene sets of varying sizes and derived from diverse tissues and environmental treatments. SeqEnrich presents as a powerful predictive framework for the analysis of Arabidopsis and Brassica napus co-expression data, and is designed so that researchers at all levels can easily access and interpret predicted transcriptional circuits. The program outperformed its ancestral program ChipEnrich, and produced detailed transcription factor networks from Arabidopsis and Brassica napus gene expression data. The SeqEnrich program is ideal for generating new hypotheses and distilling biological information from large-scale expression data.
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