Evidence map›Paper›PMID 39097583›Full record

ArticleNature communications2024

Systematic multi-trait AAV capsid engineering for efficient gene delivery.

Fatma-Elzahraa Eid, Albert T Chen, Ken Y Chan, Qin Huang, Qingxia Zheng, Isabelle G Tobey, Simon Pacouret, Pamela P Brauer, Casey Keyes, Megan Powell and 6 more

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.

0numbers the graph read from it
0cells of the map it votes in
51citing 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

51 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Review
  5. Review
  6. Review
  7. Review
  8. Review
  9. Review
  10. Tissue-specific gene delivery approaches.Bioengineering & translational medicine · 2026
    Review
  11. Article
  12. Article
  13. Review
  14. Review
  15. Viral vector-based gene therapies in the clinic: An update.Bioengineering & translational medicine · 2026
    Review
  16. Review
  17. Review
  18. Review
  19. Review
  20. The amazing AAV capsids: Into the structure-verse.Molecular therapy. Methods & clinical development · 2025
    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

16 authors.

Fatma-Elzahraa EidStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA. fatma@broadinstitute.org.ORCID 0000-0002-6822-9536
Albert T ChenStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0002-5387-0208
Ken Y ChanStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Qin HuangStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Qingxia ZhengStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Isabelle G TobeyStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0001-5428-3809
Simon PacouretStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Pamela P BrauerStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Casey KeyesStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Megan PowellStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Jencilin JohnstonStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Binhui ZhaoStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Kasper LageStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0001-6827-6239
Alice F TarantalDepartments of Pediatrics and Cell Biology and Human Anatomy, School of Medicine, and California National Primate Research Center, University of California, Davis, CA, USA.
Yujia A ChanStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0002-0731-637X
Benjamin E DevermanStanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA. bdeverma@broadinstitute.org.

Funding

National Institute on Aging (NIA) ColonyP51OD011107 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI Simon J. Atkinson · 2012 to 2026
$191.5M
SCGE Comparative Studies SupplementU42OD027094 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI HARTIGAN-O'CONNOR, DENNIS J., SEGAL, DAVID J · 2019 to 2023
$14.2M
Development and validation of AAV vectors to manipulate specific neuronal subtypes and circuits involved in epilepsy and psychiatric disorders across mammalian species.UG3MH120096 · NIMH · BROAD INSTITUTE, INC. · PI DEVERMAN, BENJAMIN E, FISHELL, GORDON J · 2019 to 2021
$6.7M
Common Genetic Variation and Quantitative Diabetes TraitsR01DK078616 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI MEIGS, JAMES B · 2008 to 2014
$5.0M
TOPMed Omics of Type 2 Diabetes and Quantitative TraitsUM1DK078616 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI MANNING, ALISA KNODLE · 2021 to 2025
$3.8M
Rare Sequence Variation and Diabetes Quantitative TraitsU01DK078616 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI MEIGS, JAMES B · 2015 to 2019
$3.6M
Novel AAVs Engineered for Efficient and Noninvasive Cross-Species Gene Editing Throughout the Central Nervous SystemUH3NS111689 · NINDS · BROAD INSTITUTE, INC. · PI DEVERMAN, BENJAMIN E · 2021 to 2022
$2.7M
Novel AAVs engineered for efficient and noninvasive cross-species gene editing throughout the central nervous systemUG3NS111689 · NINDS · BROAD INSTITUTE, INC. · PI DEVERMAN, BENJAMIN E · 2018 to 2020
$2.5M
2/3 Building Integrative CNS Networks for Genomic Analysis of AutismR01MH109903 · NIMH · MASSACHUSETTS GENERAL HOSPITAL · PI HANSEN, KASPER LAGE · 2016 to 2020
$1.4M
From genetic risk variants to convergent protein networks: an integrative approach to elucidate the causal molecular mechanisms of schizophrenia.U01MH121499 · NIMH · BROAD INSTITUTE, INC. · PI HANSEN, KASPER LAGE · 2020 to 2020
$829k
NIDDK NIH HHS R01 DK078616NIDDK NIH HHS U01 DK078616NIDDK NIH HHS UM1 DK078616NIH HHS P51 OD011107NIH HHS U42 OD027094NIMH NIH HHS R01 MH109903NIMH NIH HHS U01 MH121499NIMH NIH HHS UG3 MH120096NINDS NIH HHS UG3 NS111689NINDS NIH HHS UH3 NS111689U.S. Department of Health & Human Services | NIH | National Institute of Mental Health (NIMH) UG3MH120096U.S. Department of Health & Human Services | NIH | NIH Office of the Director (OD) P51-OD011107U.S. Department of Health & Human Services | NIH | NIH Office of the Director (OD) UG3NS111689
6 · The paper itself

Abstract

Broadening gene therapy applications requires manufacturable vectors that efficiently transduce target cells in humans and preclinical models. Conventional selections of adeno-associated virus (AAV) capsid libraries are inefficient at searching the vast sequence space for the small fraction of vectors possessing multiple traits essential for clinical translation. Here, we present Fit4Function, a generalizable machine learning (ML) approach for systematically engineering multi-trait AAV capsids. By leveraging a capsid library that uniformly samples the manufacturable sequence space, reproducible screening data are generated to train accurate sequence-to-function models. Combining six models, we designed a multi-trait (liver-targeted, manufacturable) capsid library and validated 88% of library variants on all six predetermined criteria. Furthermore, the models, trained only on mouse in vivo and human in vitro Fit4Function data, accurately predicted AAV capsid variant biodistribution in macaque. Top candidates exhibited production yields comparable to AAV9, efficient murine liver transduction, up to 1000-fold greater human hepatocyte transduction, and increased enrichment relative to AAV9 in a screen for liver transduction in macaques. The Fit4Function strategy ultimately makes it possible to predict cross-species traits of peptide-modified AAV capsids and is a critical step toward assembling an ML atlas that predicts AAV capsid performance across dozens of traits.

Indexed as

CapsidCapsid ProteinsDependovirusGenetic VectorsLiverAnimalsGenetic EngineeringGenetic TherapyGene Transfer TechniquesHEK293 CellsHepatocytesHumansMacacaMachine LearningMiceTransduction, GeneticCapsid Proteins

Identifiers

PMID39097583
PMCPMC11297966

What OpenQuestion holds

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Registered trials

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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.