Toward Completion of the Human Proteome Parts List: Progress Uncovering Proteins That Are Missing or Have Unknown Function and Developing Analytical Methods
Bibliographic record
Abstract
ADVERTISEMENT RETURN TO ISSUEEditorialNEXTToward Completion of the Human Proteome Parts List: Progress Uncovering Proteins That Are Missing or Have Unknown Function and Developing Analytical MethodsYoung-Ki Paik*Young-Ki PaikYonsei Proteome Research Center, College of Life Science and Technology, Yonsei University*Y.-K.P.: E-mail: [email protected]More by Young-Ki Paikhttp://orcid.org/0000-0002-8146-1751, Christopher M. OverallChristopher M. OverallCentre for Blood Research, Departments of Oral Biological & Medical Sciences and Biochemistry & Molecular Biology, Faculty of Dentistry, University of British ColumbiaMore by Christopher M. Overallhttp://orcid.org/0000-0001-5844-2731, Fernando CorralesFernando CorralesFunctional Proteomics Laboratory National Center of Biotechnology, CSICMore by Fernando Corrales, Eric W. DeutschEric W. DeutschInstitute for Systems BiologyMore by Eric W. Deutschhttp://orcid.org/0000-0001-8732-0928, Lydie LaneLydie LaneCALIPHO Group, SIB Swiss Institute of Bioinformatics and Department of Microbiology and Molecular Medicine, Faculty of Medicine, CMU, University of GenevaMore by Lydie Lanehttp://orcid.org/0000-0002-9818-3030, and Gilbert S. Omenn*Gilbert S. OmennInstitute for Systems Biology, Departments of Computational Medicine & Bioinformatics, Internal Medicine, and Human Genetics & School of Public Health, University of Michigan*G.S.O.: E-mail: [email protected]More by Gilbert S. Omennhttp://orcid.org/0000-0002-8976-6074Cite this: J. Proteome Res. 2018, 17, 12, 4023–4030Publication Date (Web):December 7, 2018Publication History Published online7 December 2018Published inissue 7 December 2018https://pubs.acs.org/doi/10.1021/acs.jproteome.8b00885https://doi.org/10.1021/acs.jproteome.8b00885editorialACS PublicationsCopyright © 2018 American Chemical Society. This publication is licensed under these Terms of Use. Request reuse permissions This publication is Open Access under the license indicated. Learn MoreACS Editors' Choice® is a collection designed to feature scientific articles of broad public interest. Read the latest articlesArticle Views2134Altmetric-Citations19LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail PDF (806 KB) Get e-AlertscloseSUBJECTS:Genetics,Peptide identification,Peptides and proteins,Protein identification,Proteomics Get e-Alerts
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.005 | 0.002 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| Science and technology studies | 0.001 | 0.001 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.001 | 0.001 |
| Research integrity | 0.001 | 0.004 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one teacher head, not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".