ArticleThe Plant cell2022
Quality control and evaluation of plant epigenomics data.
Article in The Plant cell, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
What it found
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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.
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Who cites it
18 citing papers in PubMed.
- Grain-maturing temperature induces seed epi-memory via DNA methylation for subsequent development in rice (Oryza sativa L.).Plant physiology · 2026Article
- Many roads lead to a plant cistrome: mapping and interpreting transcription factor binding in plants.Genome biology · 2026Review
- Methylome differences among barley inbreds and their association with genomic, transcriptomic, and phenotypic variation.Journal of experimental botany · 2026Article
- ATAC-seq in Emerging Model Organisms: Challenges and Strategies.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2025Review
- DeepWheat: predicting the effects of genomic variants on gene expression and regulatory activities across tissues and varieties in wheat using deep learning.Genome biology · 2025Article
- RNA interference shapes stress responses inFrontiers in plant science · 2025Review
- An improved nuclei isolation protocol from leaf tissue for single-cell transcriptomics.PloS one · 2025Article
- aChIP is an efficient and sensitive ChIP-seq technique for economically important plant organs.Nature plants · 2024Article
- Functional Divergence in Orthologous Transcription Factors: Insights from AtCBF2/3/1 and OsDREB1C.Molecular biology and evolution · 2024Article
- Evolutionary Dynamics of Chromatin Structure and Duplicate Gene Expression in Diploid and Allopolyploid Cotton.Molecular biology and evolution · 2024Article
- Population epigenetics: DNA methylation in the plant omics era.Plant physiology · 2024Article
- BCL7A and BCL7B potentiate SWI/SNF-complex-mediated chromatin accessibility to regulate gene expression and vegetative phase transition in plants.Nature communications · 2024Article
- Establishing an optimized ATAC-seq protocol for the maize.Frontiers in plant science · 2024Article
- Genome-wide chromatin accessibility landscape and dynamics of transcription factor networks during ovule and fiber development in cotton.BMC biology · 2023Article
- Centromere repositioning and shifts in wheat evolution.Plant communications · 2023Article
- On the causes of gene-body methylation variation in Arabidopsis thaliana.PLoS genetics · 2023Article
- Greenscreen: A simple method to remove artifactual signals and enrich for true peaks in genomic datasets including ChIP-seq data.The Plant cell · 2022Article
- Behind the scenes at The Plant Cell: The process from prereview consultation to an editorial decision.The Plant cell · 2022Article
Corrections and comments
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Authors and funding
11 authors.
Funding
Abstract
Epigenomics is the study of molecular signatures associated with discrete regions within genomes, many of which are important for a wide range of nuclear processes. The ability to profile the epigenomic landscape associated with genes, repetitive regions, transposons, transcription, differential expression, cis-regulatory elements, and 3D chromatin interactions has vastly improved our understanding of plant genomes. However, many epigenomic and single-cell genomic assays are challenging to perform in plants, leading to a wide range of data quality issues; thus, the data require rigorous evaluation prior to downstream analyses and interpretation. In this commentary, we provide considerations for the evaluation of plant epigenomics and single-cell genomics data quality with the aim of improving the quality and utility of studies using those data across diverse plant species.
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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.