ArticleNucleic acids research2018
Loose ends: almost one in five human genes still have unresolved coding status.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 42 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
42 citing papers in PubMed.
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- The state of the human coding gene catalogues.Database : the journal of biological databases and curation · 2025Article
- More than 2,500 coding genes in the human reference gene set still have unsettled status.bioRxiv : the preprint server for biology · 2024Article
- Polymorphic pseudogenes in the human genome - a comprehensive assessment.Human genetics · 2024Article
- The rapid degradation of translated upstream regions points to an inefficient translation initiation process.bioRxiv : the preprint server for biology · 2024Article
- Evidence for widespread translation of 5' untranslated regions.Nucleic acids research · 2024Article
- Updating mRNA variants of the human RSK4 gene and their expression in different stressed situations.Heliyon · 2024Article
- Alternative Transcripts Diversify Genome Function for Phenome Relevance to Health and Diseases.Genes · 2023Review
- Single-molecule fluorescence methods for protein biomarker analysis.Analytical and bioanalytical chemistry · 2023Review
- Article
- LAFITE Reveals the Complexity of Transcript Isoforms in Subcellular Fractions.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Origins and Evolution of Human Tandem Duplicated Exon Substitution Events.Genome biology and evolution · 2022Article
- A large-scale benchmark study of tools for the classification of protein-coding and non-coding RNAs.Nucleic acids research · 2022Article
- DUSP5 and PHLDA1 mutations in mature cystic teratomas of the ovary identified on whole-exome sequencing may explain teratoma characteristics.Human genomics · 2022Article
- APPRIS principal isoforms and MANE Select transcripts define reference splice variants.Bioinformatics (Oxford, England) · 2022Article
- The effects of sequencing depth on the assembly of coding and noncoding transcripts in the human genome.BMC genomics · 2022Article
- How Far Are We from the Completion of the Human Protein Interactome Reconstruction?Biomolecules · 2022Article
- Profit versus Quality: The Enigma of Scientific Wellness.Journal of personalized medicine · 2022Review
- Mutation or not, what directly establishes a neoplastic state, namely cellular immortality and autonomy, still remains unknown and should be prioritized in our research.Journal of Cancer · 2022Review
Corrections and comments
- Erratum issued
Authors and funding
9 authors.
Funding
Abstract
Seventeen years after the sequencing of the human genome, the human proteome is still under revision. One in eight of the 22 210 coding genes listed by the Ensembl/GENCODE, RefSeq and UniProtKB reference databases are annotated differently across the three sets. We have carried out an in-depth investigation on the 2764 genes classified as coding by one or more sets of manual curators and not coding by others. Data from large-scale genetic variation analyses suggests that most are not under protein-like purifying selection and so are unlikely to code for functional proteins. A further 1470 genes annotated as coding in all three reference sets have characteristics that are typical of non-coding genes or pseudogenes. These potential non-coding genes also appear to be undergoing neutral evolution and have considerably less supporting transcript and protein evidence than other coding genes. We believe that the three reference databases currently overestimate the number of human coding genes by at least 2000, complicating and adding noise to large-scale biomedical experiments. Determining which potential non-coding genes do not code for proteins is a difficult but vitally important task since the human reference proteome is a fundamental pillar of most basic research and supports almost all large-scale biomedical projects.
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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.