ArticleJournal of proteome research2018
ProForma: A Standard Proteoform Notation.
Article in Journal of proteome research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Review
- Article
- Koina: Democratizing machine learning for proteomics research.Nature communications · 2025Article
- A needed nomenclature for nucleosomes.Molecular cell · 2025Review
- TopLib: Building and Searching Top-Down Mass Spectral Libraries for Proteoform Identification.Analytical chemistry · 2025Article
- MSCI: an open-source Python package for information content assessment of peptide fragmentation spectra.Bioinformatics advances · 2025Article
- Top-down mass spectrometry of native proteoforms and their complexes: a community study.Nature methods · 2024Article
- Influence of different sample preparation approaches on proteoform identification by top-down proteomics.Nature methods · 2024Article
- Puzzle of Proteoform Variety-Where Is a Key?Proteomes · 2024Article
- Proteomics-The State of the Field: The Definition and Analysis of Proteomes Should Be Based in Reality, Not Convenience.Proteomes · 2024Article
- Proteomics and Its Applications in Cancers 2.0.International journal of molecular sciences · 2024Article
- Article
- Comparing Top-Down Proteoform Identification: Deconvolution, PrSM Overlap, and PTM Detection.Journal of proteome research · 2023Article
- Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work.Journal of proteome research · 2023Review
- TopPICR: A Companion R Package for Top-Down Proteomics Data Analysis.Journal of proteome research · 2023Article
- Proteomics Standards Initiative's ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms.Journal of proteome research · 2022Article
- Fourier-transform ion cyclotron resonance mass spectrometry for characterizing proteoforms.Mass spectrometry reviews · 2022Review
- The Human Proteoform Atlas: a FAIR community resource for experimentally derived proteoforms.Nucleic acids research · 2022Article
- Internal Fragment Ions Disambiguate and Increase Identifications in Top-Down Proteomics.Journal of proteome research · 2021Article
- The Human Proteoform Project: Defining the human proteome.Science advances · 2021Article
Corrections and comments
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Authors and funding
18 authors.
Funding
Abstract
The Consortium for Top-Down Proteomics (CTDP) proposes a standardized notation, ProForma, for writing the sequence of fully characterized proteoforms. ProForma provides a means to communicate any proteoform by writing the amino acid sequence using standard one-letter notation and specifying modifications or unidentified mass shifts within brackets following certain amino acids. The notation is unambiguous, human-readable, and can easily be parsed and written by bioinformatic tools. This system uses seven rules and supports a wide range of possible use cases, ensuring compatibility and reproducibility of proteoform annotations. Standardizing proteoform sequences will simplify storage, comparison, and reanalysis of proteomic studies, and the Consortium welcomes input and contributions from the research community on the continued design and maintenance of this standard.
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