ArticleCurrent protocols in molecular biology2015
Mapping 3' mRNA isoforms on a genomic scale.
Article in Current protocols in molecular biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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
15 citing papers in PubMed.
- Genetic analysis of polyadenylation patterns reveals distinct classes of yeast genes and local chromatin effects on Pol II elongation.Genetics · 2026Article
- Location of polyadenylation sites within 3' untranslated regions is linked to biological function in yeast.Genetics · 2024Article
- Chromatin regulates alternative polyadenylation via the RNA polymerase II elongation rate.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Functional analysis of a random-sequence chromosome reveals a high level and the molecular nature of transcriptional noise in yeast cells.Molecular cell · 2023Article
- Condition-specific 3' mRNA isoform half-lives and stability elements in yeast.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Genome-Wide Mapping of 5' Isoforms with 5'-Seq.Current protocols · 2023Article
- Article
- 3' Untranslated Regions Are Modular Entities That Determine Polyadenylation Profiles.Molecular and cellular biology · 2022Article
- A compensatory link between cleavage/polyadenylation and mRNA turnover regulates steady-state mRNA levels in yeast.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Neuronal Cells Display Distinct Stability Controls of Alternative Polyadenylation mRNA Isoforms, Long Non-Coding RNAs, and Mitochondrial RNAs.Frontiers in genetics · 2022Article
- Pheno-RNA, a method to associate genes with a specific phenotype, identifies genes linked to cellular transformation.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Article
- Probing In Vivo Structure of Individual mRNA 3' Isoforms Using Dimethyl Sulfate.Current protocols in molecular biology · 2019Article
- Protein Binding to mRNA 3' Isoforms.Current protocols in molecular biology · 2019Article
- Extensive Structural Differences of Closely Related 3' mRNA Isoforms: Links to Pab1 Binding and mRNA Stability.Molecular cell · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
Abstract
Most eukaryotic genes are transcribed into mRNAs with alternative poly(A) sites. Emerging evidence suggests that mRNA isoforms with alternative poly(A) sites can perform critical regulatory functions in numerous biological processes. In recent years, a number of strategies utilizing high-throughput sequencing technologies have been developed to aid in the identification of genome-wide poly(A) sites. This unit describes a modified protocol for a recently published 3'READS (3' region extraction and deep sequencing) method that accurately identifies genome-wide poly(A) sites and that can be used to quantify the relative abundance of the resulting 3' mRNA isoforms. This approach minimizes nonspecific sequence reads due to internal priming and typically yields a high percentage of sequence reads that are ideally suited for accurate poly(A) identification.
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.