Evidence map›Paper›PMID 39169264›Full record

ArticleNature biotechnology2025

Systematic identification of minor histocompatibility antigens predicts outcomes of allogeneic hematopoietic cell transplantation.

Nicoletta Cieri, Nidhi Hookeri, Kari Stromhaug, Liang Li, Julia Keating, Paula Díaz-Fernández, Valle Gómez-García de Soria, Jonathan Stevens, Raphael Kfuri-Rubens, Yiren Shao and 27 more

Abstract read
In one paragraph

Article in Nature biotechnology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
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

11 citing papers in PubMed.

  1. Review
  2. Article
  3. Chronic graft-versus-host disease.Nature reviews. Disease primers · 2026
    Review
  4. Article
  5. Review
  6. Article
  7. Review
  8. Review
  9. Article
  10. Article
  11. Article
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

37 authors.

Nicoletta CieriDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0003-1340-6272
Nidhi HookeriDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Kari StromhaugDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Liang LiBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.
Julia KeatingDepartment of Data Science, Dana-Farber Cancer Institute, Boston, MA, USA.
Paula Díaz-FernándezDepartment of Immunology, Instituto de Investigación Sanitaria Princesa (IIS-IP), Hospital Universitario de La Princesa, Madrid, Spain.
Valle Gómez-García de SoriaDepartment of Hematology, Instituto de Investigación Sanitaria Princesa (IIS-IP), Hospital Universitario de La Princesa, Madrid, Spain.
Jonathan StevensDepartment of Pathology, Brigham and Women's Hospital, Boston, MA, USA.
Raphael Kfuri-RubensDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0003-3256-9640
Yiren ShaoDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Kameron A KoosheshHarvard Medical School, Boston, MA, USA.
Kaila PowellDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Helen JiDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Gabrielle M HernandezBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0009-0005-0494-0467
Jennifer AbelinBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.
Susan KlaegerBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-0074-5163
Cleo FormanDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Karl R ClauserBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-1052-9456
Siranush SarkizovaBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-2530-8610
David A BraunDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0003-4543-5553
Livius PenterDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0002-9060-0207
Haesook T KimDepartment of Data Science, Dana-Farber Cancer Institute, Boston, MA, USA.
William J LaneHarvard Medical School, Boston, MA, USA.ORCID http://orcid.org/0000-0002-1097-5229
Giacomo OliveiraDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0001-7435-5603
Leslie S KeanHarvard Medical School, Boston, MA, USA.
Shuqiang LiDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0001-9106-6141
Kenneth J LivakDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0001-9105-5856
Steven A CarrBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-7203-4299
Derin B KeskinDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0002-8496-6181
Cecilia Muñoz-CallejaDepartment of Immunology, Instituto de Investigación Sanitaria Princesa (IIS-IP), Hospital Universitario de La Princesa, Madrid, Spain.
Vincent T HoDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Jerome RitzDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0001-5526-4669
Robert J SoifferDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Donna NeubergDepartment of Data Science, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0003-2566-3145
Chip StewartBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.
Gad GetzBroad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-0936-0753
Catherine J WuDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA. catherine_wu@dfci.harvard.edu.ORCID http://orcid.org/0000-0002-3348-5054

Funding

VectorP30CA006516 · NCI · DANA-FARBER CANCER INSTITUTE · PI Irene M. Ghobrial · 1985 to 2026
$330.6M
Yale Pathology Tissue Services Shared ResourceP30CA016359 · NCI · YALE UNIVERSITY · PI Eric P. Winer · 1985 to 2026
$85.0M
Treating the P13-Kinase/AKTP50CA101942 · NCI · BETH ISRAEL DEACONESS MEDICAL CENTER · PI David McDermott · 2003 to 2026
$53.4M
Project 2: The New Era of Cellular Therapies For Lung Transplant ToleranceU19AI174967 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI Joren C Madsen · 2023 to 2026
$18.8M
Cancer Immune Monitoring and Analysis CenterU24CA224331 · NCI · DANA-FARBER CANCER INST · PI FRANK S HODI, Catherine Ju-Ying Wu · 2017 to 2026
$18.4M
ProteomicsP01CA206978 · NCI · DANA-FARBER CANCER INST · PI WU, CATHERINE JU-YING · 2016 to 2025
$17.0M
Single Cell Analysis and ImmunogeneticsP01HL158505 · NHLBI · DANA-FARBER CANCER INST · PI Kenneth James Livak · 2022 to 2026
$15.3M
Single Cell and ImmunogenomicsP01CA229092 · NCI · DANA-FARBER CANCER INST · PI KIM, HAESOOK T · 2019 to 2023
$13.8M
Novel Biologic Therapies for GVHDR01HL095791 · NHLBI · SEATTLE CHILDREN'S HOSPITAL · PI KEAN, LESLIE S · 2010 to 2025
$13.3M
Project 3: Enhanced Costimulation Blockade to Achieve Clinically Relevant Heart Allograft ToleranceP01HL158504 · NHLBI · MASSACHUSETTS GENERAL HOSPITAL · PI MADSEN, JOREN C · 2021 to 2025
$12.1M
Personal tumor neoantigens for immunity against chronic lymphocytic leukemiaR01CA155010 · NCI · DANA-FARBER CANCER INST · PI Catherine Ju-Ying Wu · 2011 to 2026
$9.6M
Th1 polarizing immune responses using DNA origamiU54CA244726 · NCI · HARVARD UNIVERSITY · PI HODI, FRANK S, MOONEY, DAVID J · 2019 to 2019
$8.2M
American Association for Cancer Research (American Association for Cancer Research, Inc.) 20-40-46-CIERDivision of Intramural Research, National Institute of Allergy and Infectious Diseases (Division of Intramural Research of the NIAID) U19 Al1051731Leukemia and Lymphoma Society (Leukemia & Lymphoma Society) SCOR-22937-22NCI NIH HHS P01 CA206978NCI NIH HHS P01 CA229092NCI NIH HHS P30 CA006516NCI NIH HHS P30 CA016359NCI NIH HHS P50 CA101942NCI NIH HHS R01 CA155010NCI NIH HHS R25 CA174650NCI NIH HHS R50 CA251956NCI NIH HHS U01 CA271402NCI NIH HHS U24 CA224331NCI NIH HHS U24 CA270823NCI NIH HHS U54 CA244726NHLBI NIH HHS P01 HL158504NHLBI NIH HHS P01 HL158505NHLBI NIH HHS R01 HL095791NHLBI NIH HHS R01 HL157174NIAID NIH HHS U19 AI174967U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) 5R25CA174650U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) R50CA251956U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) U01CA27140U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) U24CA270823U.S. Department of Health & Human Services | NIH | National Heart, Lung, and Blood Institute (NHLBI) HL158505
6 · The paper itself

Abstract

T cell alloreactivity against minor histocompatibility antigens (mHAgs)-polymorphic peptides resulting from donor-recipient (D-R) disparity at sites of genetic polymorphisms-is at the core of the therapeutic effect of allogeneic hematopoietic cell transplantation (allo-HCT). Despite the crucial role of mHAgs in graft-versus-leukemia (GvL) and graft-versus-host disease (GvHD) reactions, it remains challenging to consistently link patient-specific mHAg repertoires to clinical outcomes. Here we devise an analytic framework to systematically identify mHAgs, including their detection on HLA class I ligandomes and functional verification of their immunogenicity. The method relies on the integration of polymorphism detection by whole-exome sequencing of germline DNA from D-R pairs with organ-specific transcriptional- and proteome-level expression. Application of this pipeline to 220 HLA-matched allo-HCT D-R pairs demonstrated that total and organ-specific mHAg load could independently predict the occurrence of acute GvHD and chronic pulmonary GvHD, respectively, and defined promising GvL targets, confirmed in a validation cohort of 58 D-R pairs, for the prevention or treatment of post-transplant disease recurrence.

Indexed as

Hematopoietic Stem Cell TransplantationMinor Histocompatibility AntigensFemaleGraft vs Host DiseaseHumansMaleTransplantation, HomologousTreatment OutcomeMinor Histocompatibility Antigens

Identifiers

PMID39169264
PMCPMC11912513

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