Evidence map›Paper›PMID 25413013›Full record

ArticleNature communications2014

Divergent paths for the selection of immunodominant epitopes from distinct antigenic sources.

AeRyon Kim, Isamu Z Hartman, Brad Poore, Tatiana Boronina, Robert N Cole, Nianbin Song, M Teresa Ciudad, Rachel R Caspi, Dolores Jaraquemada, Scheherazade Sadegh-Nasseri

Open access · bronzeAbstract read
In one paragraph

Article in Nature communications, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.

0numbers the graph read from it
0cells of the map it votes in
47citing papers in PubMed
1.9field-weighted citation impact, top 15% of its field
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

47 citing papers in PubMed, 66 citations in OpenAlex.

  1. Article
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  5. Review
  6. Article
  7. Article
  8. Revisiting the Principles of Designing a Vaccine.Methods in molecular biology (Clifton, N.J.) · 2022
    Article
  9. Article
  10. Review
  11. Article
  12. Article
  13. Review
  14. Review
  15. Review
  16. Article
  17. Article
  18. Article
  19. Review
  20. Cysteinyl cathepsins in cardiovascular diseases.Biochimica et biophysica acta. Proteins and proteomics · 2020
    Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors at 4 institutions in 2 countries.

AeRyon KimDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
Isamu Z HartmanThe Graduate Program in Immunology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
Brad PooreDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
Tatiana BoroninaDepartment of Biological Chemistry, Mass Spectrometry and Proteomics Facility, The Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
Robert N ColeDepartment of Biological Chemistry, Mass Spectrometry and Proteomics Facility, The Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
Nianbin SongThe Graduate Program in Immunology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
M Teresa CiudadDepartment of Cell Biology, Physiology and Immunology, Laboratori d'Immunologia Cellular, Institut de Biotecnologia i Biomedicina, Universitat Autònoma de Barcelona, 08193 Barcelona, Spain.
Rachel R CaspiLaboratory of Immunology, National Eye Institute, NIH, Bethesda, Maryland 20892, USA.
Dolores JaraquemadaDepartment of Cell Biology, Physiology and Immunology, Laboratori d'Immunologia Cellular, Institut de Biotecnologia i Biomedicina, Universitat Autònoma de Barcelona, 08193 Barcelona, Spain.
Scheherazade Sadegh-Nasseri1] Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA [2] The Graduate Program in Immunology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.
Johns Hopkins University · USUniversitat Autònoma de Barcelona · ESJohns Hopkins Medicine · USNational Eye Institute · US

Funding

Genetic, Cellular and Molecular Mechanisms in Autoimmunity to RetinaZIAEY000184 · NEI · NATIONAL EYE INSTITUTE · PI CASPI, RACHEL R. · 2009 to 2025
$51.7M
Translational Research Enhancement CoreP30DK089502 · NIDDK · JOHNS HOPKINS UNIVERSITY · PI ZACHOS, NICHOLAS CONSTANTINE · 2011 to 2020
$12.0M
CELLULAR &MOLECULAR MECH OF INFLAMMATORY REACTIONST32AI007247 · NIAID · JOHNS HOPKINS UNIVERSITY · PI Joel L Pomerantz · 1985 to 2026
$10.2M
Role of DM in Generation of Immunodominant Epitope(s)R01AI063764 · NIAID · JOHNS HOPKINS UNIVERSITY · PI SADEGH-NASSERI, SCHEHERAZADE · 2006 to 2015
$3.6M
STRUCTURE/BIOLOGY OF SHORT LIVED MHC II LIGAND COMPLEXESR01GM053549 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI SADEGH-NASSERI, SCHEHERAZADE · 1998 to 2007
$1.9M
Molecular Mechanisms of HLA-DO in Antigen ProcessingR21AI101987 · NIAID · JOHNS HOPKINS UNIVERSITY · PI SADEGH-NASSERI, SCHEHERAZADE · 2012 to 2013
$433k
Cell Free System for Identification of MHC Class II Immunodominant EpitopesR56AI091923 · NIAID · JOHNS HOPKINS UNIVERSITY · PI SADEGH-NASSERI, SCHEHERAZADE · 2011 to 2011
$328k
Role of DM in generation in immunodominant epitope(s)R56AI063764 · NIAID · JOHNS HOPKINS UNIVERSITY · PI SADEGH-NASSERI, SCHEHERAZADE · 2005 to 2005
$325k
NIAID NIH HHS R01 AI063764NIAID NIH HHS R01AI063764NIAID NIH HHS R21 AI101987NIAID NIH HHS R56 AI063764NIAID NIH HHS R56 AI091923NIAID NIH HHS T32 AI007247NIDDK NIH HHS P30 DK089502NIGMS NIH HHS GM053549NIGMS NIH HHS R01 GM053549
6 · The paper itself

Abstract

Immunodominant epitopes are few selected epitopes from complex antigens that initiate T-cell responses. Here to provide further insights into this process, we use a reductionist cell-free antigen-processing system composed of defined components. We use the system to characterize steps in antigen processing of pathogen-derived proteins or autoantigens and we find distinct paths for peptide processing and selection. Autoantigen-derived immunodominant epitopes are resistant to digestion by cathepsins, whereas pathogen-derived epitopes are sensitive. Sensitivity to cathepsins enforces capture of pathogen-derived epitopes by major histocompatibility complex class II (MHC class II) before processing, and resistance to HLA-DM-mediated-dissociation preserves the longevity of those epitopes. We show that immunodominance is established by higher relative abundance of the selected epitopes, which survive cathepsin digestion either by binding to MHC class II and resisting DM-mediated-dissociation, or being chemically resistant to cathepsins degradation. Non-dominant epitopes are sensitive to both DM and cathepsins and are destroyed.

Indexed as

Amino Acid SequenceAntigen PresentationAntigen-Presenting CellsAutoantigensCathepsinsHistocompatibility Antigens Class IIHumansImmunodominant EpitopesInfluenza A Virus, H5N1 SubtypeInfluenza, HumanMass SpectrometryMolecular Sequence DataT-LymphocytesViral ProteinsAutoantigensCathepsinsHistocompatibility Antigens Class IIImmunodominant EpitopesViral Proteins

Identifiers

PMID25413013
PMCPMC4241505
OpenAlexW2067288485

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.