ReviewNucleic acids research2002
Current methods of gene prediction, their strengths and weaknesses.
Review 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 113 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.
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Who cites it
113 citing papers in PubMed.
- PhyCysID: Plant Cystatin Protein Prediction by an Artificial Intelligence Approach.Journal of chemical information and modeling · 2025Article
- Difference Analysis Among Six Kinds of Acceptor Splicing Sequences by the Dispersion Features of 6-mer Subsets in Human Genes.Biology · 2025Article
- An overview of computational methods for gene prediction in eukaryotes: strengths, limitations, and future directions.Bioinformatics advances · 2025Review
- Klumpy: A tool to evaluate the integrity of long-read genome assemblies and illusive sequence motifs.Molecular ecology resources · 2025Article
- Applications of genome-scale metabolic models to investigate microbial metabolic adaptations in response to genetic or environmental perturbations.Briefings in bioinformatics · 2023Review
- Gene prediction in the immunoglobulin loci.Genome research · 2022Article
- Chromosome-Level Reference Genomes for Two Strains of Caenorhabditis briggsae: An Improved Platform for Comparative Genomics.Genome biology and evolution · 2022Article
- Metaproteomics as a tool for studying the protein landscape of human-gut bacterial species.PLoS computational biology · 2022Article
- Proteogenomic Analysis Provides Novel Insight into Genome Annotation and Nitrogen Metabolism inMicrobiology spectrum · 2021Article
- Protein-Coding Genes ofGenes · 2021Article
- geneRFinder: gene finding in distinct metagenomic data complexities.BMC bioinformatics · 2021Article
- Automatic Prediction and Annotation: There Are Strong Biases for Multigenic Families.Frontiers in genetics · 2021Article
- Gene Validation and Remodelling Using Proteogenomics ofFrontiers in microbiology · 2021Article
- Sequencing effort dictates gene discovery in marine microbial metagenomes.Environmental microbiology · 2020Article
- Review on the Computational Genome Annotation of Sequences Obtained by Next-Generation Sequencing.Biology · 2020Review
- Metagenomic Approaches to Analyze Antimicrobial Resistance: An Overview.Frontiers in genetics · 2020Review
- CNN-MGP: Convolutional Neural Networks for Metagenomics Gene Prediction.Interdisciplinary sciences, computational life sciences · 2019Article
- Ambiguous splice sites distinguish circRNA and linear splicing in the human genome.Bioinformatics (Oxford, England) · 2019Article
- Closing target trimming and CTTdocker programs for discovering hidden superfamily loci in genomes.PloS one · 2019Article
- Machine Learning in Amyotrophic Lateral Sclerosis: Achievements, Pitfalls, and Future Directions.Frontiers in neuroscience · 2019Review
53 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
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
While the genomes of many organisms have been sequenced over the last few years, transforming such raw sequence data into knowledge remains a hard task. A great number of prediction programs have been developed that try to address one part of this problem, which consists of locating the genes along a genome. This paper reviews the existing approaches to predicting genes in eukaryotic genomes and underlines their intrinsic advantages and limitations. The main mathematical models and computational algorithms adopted are also briefly described and the resulting software classified according to both the method and the type of evidence used. Finally, the several difficulties and pitfalls encountered by the programs are detailed, showing that improvements are needed and that new directions must be considered.
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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.