ArticleMethods (San Diego, Calif.)2014
High throughput characterizations of poly(A) site choice in plants.
Article in Methods (San Diego, Calif.), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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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
23 citing papers in PubMed.
- Nucleotide-resolution Mapping of RNA N6-Methyladenosine (m6A) modifications and comprehensive analysis of global polyadenylation events in mRNA 3' end processing in malaria pathogenbioRxiv : the preprint server for biology · 2025Article
- Article
- Stress responses of plants through transcriptome plasticity by mRNA alternative polyadenylation.Molecular horticulture · 2023Review
- Natural variation in the plant polyadenylation complex.Frontiers in plant science · 2023Article
- Article
- Article
- HDA6-dependent histone deacetylation regulates mRNA polyadenylation inGenome research · 2020Article
- Histone Deacetylase 11 Knockdown Blocks Larval Development and Metamorphosis in the Red Flour Beetle,Frontiers in genetics · 2020Article
- Epigenetic modifications acetylation and deacetylation play important roles in juvenile hormone action.BMC genomics · 2018Article
- Genome-wide atlas of alternative polyadenylation in the forage legume red clover.Scientific reports · 2018Article
- An integrative model for alternative polyadenylation, IntMAP, delineates mTOR-modulated endoplasmic reticulum stress response.Nucleic acids research · 2018Article
- Pipecolic acid confers systemic immunity by regulating free radicals.Science advances · 2018Article
- Characterization of mRNA polyadenylation in the apicomplexa.PloS one · 2018Article
- Alternative polyadenylation analysis in animals and plants: newly developed strategies for profiling, processing and validation.International journal of biological sciences · 2018Review
- Multiple functions of CREB-binding protein during postembryonic development: identification of target genes.BMC genomics · 2017Article
- Alternative Polyadenylation: Methods, Findings, and Impacts.Genomics, proteomics & bioinformatics · 2017Review
- Poly(A)-ClickSeq: click-chemistry for next-generation 3΄-end sequencing without RNA enrichment or fragmentation.Nucleic acids research · 2017Article
- Genomic and functional characterization of coleopteran insect-specific α-amylase inhibitor gene from Amaranthus species.Plant molecular biology · 2017Article
- Accurate Profiling of Gene Expression and Alternative Polyadenylation with Whole Transcriptome Termini Site Sequencing (WTTS-Seq).Genetics · 2016Article
- Experimental Genome-Wide Determination of RNA Polyadenylation in Chlamydomonas reinhardtii.PloS one · 2016Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
The polyadenylation of mRNA in eukaryotes is an important biological process. In recent years, significant progress has been made in the field of mRNA polyadenylation owing to the advent of the next generation DNA sequencing technologies. The high-throughput sequencing capabilities have resulted in the direct experimental determinations of large numbers of polyadenylation sites, analysis of which has revealed a vast potential for the regulation of gene expression in eukaryotes. These collections have been generated using specialized sequencing methods that are targeted to the junction of 3'-UTR and the poly(A) tail. Here we present three variations of such a protocol that has been used for the analysis of alternative polyadenylation in plants. While all these methods use oligo-dT as an anchor to the 3'-end, they differ in the means of generating an anchor for the 5'-end in order to produce PCR products suitable for effective Illumina sequencing; the use of different methods to append 5' adapters expands the possible utility of these approaches. These methods are versatile, reproducible, and may be used for gene expression analysis as well as global determinations of poly(A) site choice.
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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.