ArticleJournal of proteome research2014
Analyzing the first drafts of the human proteome.
Article in Journal of proteome research, 2014. 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 48 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
48 citing papers in PubMed.
- Expression and splicing mediate distinct biological signals.BMC biology · 2023Article
- qPTM: an updated database for PTM dynamics in human, mouse, rat and yeast.Nucleic acids research · 2023Article
- Origins and Evolution of Human Tandem Duplicated Exon Substitution Events.Genome biology and evolution · 2022Article
- Reanalysis of ProteomicsDB Using an Accurate, Sensitive, and Scalable False Discovery Rate Estimation Approach for Protein Groups.Molecular & cellular proteomics : MCP · 2022Article
- Proteome Discoverer-A Community Enhanced Data Processing Suite for Protein Informatics.Proteomes · 2021Review
- Reflections on the HUPO Human Proteome Project, the Flagship Project of the Human Proteome Organization, at 10 Years.Molecular & cellular proteomics : MCP · 2021Article
- Using Deep Learning to Extrapolate Protein Expression Measurements.Proteomics · 2020Article
- A high-stringency blueprint of the human proteome.Nature communications · 2020Review
- Pathogenic impact of transcript isoform switching in 1,209 cancer samples covering 27 cancer types using an isoform-specific interaction network.Scientific reports · 2020Article
- Dynamic rewiring of the human interactome by interferon signaling.Genome biology · 2020Article
- Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era.Plants (Basel, Switzerland) · 2020Review
- Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0.Journal of proteome research · 2019Article
- The jPOST environment: an integrated proteomics data repository and database.Nucleic acids research · 2019Article
- Assembling the Community-Scale Discoverable Human Proteome.Cell systems · 2018Article
- Systems level expression correlation of Ras GTPase regulators.Cell communication and signaling : CCS · 2018Article
- Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow.Nature communications · 2018Article
- Protein biomarkers for subtyping breast cancer and implications for future research.Expert review of proteomics · 2018Review
- Advances in the Chromosome-Centric Human Proteome Project: looking to the future.Expert review of proteomics · 2017Review
- Article
- An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes.Cell systems · 2017Article
Corrections and comments
- Comment on
- Comment on
- Erratum issued
Authors and funding
4 authors.
Funding
Abstract
This letter analyzes two large-scale proteomics studies published in the same issue of Nature. At the time of the release, both studies were portrayed as draft maps of the human proteome and great advances in the field. As with the initial publication of the human genome, these papers have broad appeal and will no doubt lead to a great deal of further analysis by the scientific community. However, we were intrigued by the number of protein-coding genes detected by the two studies, numbers that far exceeded what has been reported for the multinational Human Proteome Project effort. We carried out a simple quality test on the data using the olfactory receptor family. A high-quality proteomics experiment that does not specifically analyze nasal tissues should not expect to detect many peptides for olfactory receptors. Neither of the studies carried out experiments on nasal tissues, yet we found peptide evidence for more than 100 olfactory receptors in the two studies. These results suggest that the two studies are substantially overestimating the number of protein coding genes they identify. We conclude that the experimental data from these two studies should be used with caution.
Indexed as
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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.