Evidence map›Paper›PMID 41026785›Full record

ArticlePLoS computational biology2025

Harmony-based data integration for distributed single-cell multi-omics data.

Ruizhi Yuan, Ziqi Rong, Haoran Hu, Tianhao Liu, Shiyue Tao, Wei Chen, Lu Tang

Abstract read
In one paragraph

Article in PLoS computational biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. 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

7 authors.

Ruizhi YuanDepartment of Biostatistics and Health Data Science, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.ORCID 0009-0000-8996-8963
Ziqi RongDepartment of Pediatrics, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.
Haoran HuDepartment of Biostatistics and Health Data Science, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.ORCID 0000-0003-3619-2852
Tianhao LiuDepartment of Pediatrics, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.
Shiyue TaoDepartment of Biostatistics and Health Data Science, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.
Wei ChenDepartment of Biostatistics and Health Data Science, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.
Lu TangDepartment of Biostatistics and Health Data Science, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.ORCID 0000-0001-6143-9314

Funding

Project 2 Impact of Innate and Adaptive Immunity At the Airway Epithelium in Severe AsthmaP01AI106684 · NIAID · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Anuradha Ray · 2015 to 2026
$18.9M
Trans-ancestry, single-cell multiomics dissection of IBD-associated loci in CD4 memory T cellsR01DK138458 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Wei Chen, Richard H Duerr · 2024 to 2026
$1.4M
Improving Safety and Trustworthiness in Data-Driven Decision Learning for SepsisR56LM014522 · NLM · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI TANG, LU · 2025 to 2025
$829k
High-Throughput Computing for Genomics and Bioinformatics ResearchS10OD028483 · OD · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI LEE, ADRIAN V · 2021 to 2021
$574k
Federated learning methods for heterogeneous and distributed Medicaid dataR21DA055672 · NIDA · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI TANG, LU · 2023 to 2024
$418k
NIAID NIH HHS P01 AI106684NIDA NIH HHS R21 DA055672NIDDK NIH HHS R01 DK138458NIH HHS S10 OD028483NLM NIH HHS R56 LM014522
6 · The paper itself

Abstract

Large-scale single-cell projects generate rapidly growing datasets, but downstream analysis is often confounded by data sources, requiring data integration methods to do correction. Existing data integration methods typically require data centralization, raising privacy and security concerns. Here, we introduce Federated Harmony, a novel method combining properties of federated learning with Harmony algorithm to integrate decentralized omics data. This approach preserves privacy by avoiding raw data sharing while maintaining integration performance comparable to Harmony. Experiments on various types of single-cell data showcase superior results, highlighting a novel data integration approach for distributed multi-omics data without compromising data privacy or analytical performance.

Indexed as

Computational BiologyGenomicsSingle-Cell AnalysisAlgorithmsHumansInformation DisseminationMultiomics

Identifiers

PMID41026785
PMCPMC12513639

What OpenQuestion holds

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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.