ArticleNucleic acids research2002
Probabilistic prediction of Saccharomyces cerevisiae mRNA 3'-processing sites.
Article in Nucleic acids research, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 63 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
63 citing papers in PubMed.
- Synthetic collinearization of a chromosome segment enables genetic dissection of incompatibility between distant genera.bioRxiv : the preprint server for biology · 2025Article
- Effect ofPeerJ · 2024Article
- Surveillance of 3' mRNA cleavage during transcription termination requires CF IB/Hrp1.Nucleic acids research · 2023Article
- Functional characterization of the Komagataella phaffii 1033 gene promoter and transcriptional terminator.World journal of microbiology & biotechnology · 2023Article
- A Survey on Methods for Predicting Polyadenylation Sites from DNA Sequences, Bulk RNA-seq, and Single-cell RNA-seq.Genomics, proteomics & bioinformatics · 2023Review
- Nonsense-mediated mRNA decay and metal ion homeostasis and detoxification in Saccharomyces cerevisiae.Biometals : an international journal on the role of metal ions in biology, biochemistry, and medicine · 2022Review
- Towards deorphanizing G protein-coupled receptors ofParasitology · 2020Article
- Bidirectional terminators: an underestimated aspect of gene regulation.Current genetics · 2018Review
- Transcription elongation rate has a tissue-specific impact on alternative cleavage and polyadenylation inRNA (New York, N.Y.) · 2017Article
- Comparative analysis of alternative polyadenylation inGenome research · 2017Article
- Systematic dissection of the sequence determinants of gene 3' end mediated expression control.PLoS genetics · 2015Article
- Article
- Efficient mRNA polyadenylation requires a ubiquitin-like domain, a zinc knuckle, and a RING finger domain, all contained in the Mpe1 protein.Molecular and cellular biology · 2014Article
- Regulation of natural mRNAs by the nonsense-mediated mRNA decay pathway.Eukaryotic cell · 2014Review
- Production and quantification of sesquiterpenes in Saccharomyces cerevisiae, including extraction, detection and quantification of terpene products and key related metabolites.Nature protocols · 2014Article
- Immunity of the Saccharomyces cerevisiae SSY5 mRNA to nonsense-mediated mRNA decay.Frontiers in molecular biosciences · 2014Article
- A unified model for yeast transcript definition.Genome research · 2014Article
- Genome-wide analysis of poly(A) site selection in Schizosaccharomyces pombe.RNA (New York, N.Y.) · 2013Article
- DNA damage induces targeted, genome-wide variation of poly(A) sites in budding yeast.Genome research · 2013Article
- Use of expression-enhancing terminators in Saccharomyces cerevisiae to increase mRNA half-life and improve gene expression control for metabolic engineering applications.Metabolic engineering · 2013Article
3 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
We present a tool for the prediction of mRNA 3'-processing (cleavage and polyadenylation) sites in the yeast Saccharomyces cerevisiae, based on a discrete state-space model or hidden Markov model. Comparison of predicted sites with experimentally verified 3'-processing sites indicates good agreement. All predicted or known yeast genes were analyzed to find probable 3'-processing sites. Known alternative 3'-processing sites, both within the 3'-untranslated region and within the protein coding sequence were successfully identified, leading to the possibility of prediction of previously unknown alternative sites. The lack of an apparent 3'-processing site calls into question the validity of some predicted genes. This is specifically investigated for predicted genes with overlapping coding sequences.
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.