Evidence map›Paper›PMID 40495172›Full record

ArticleGenome biology2025

TORC: Target-Oriented Reference Construction for supervised cell-type identification in scRNA-seq.

Xin Wei, Wenjing Ma, Zhijin Wu, Hao Wu

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

4 authors.

Xin WeiDepartment of Biostatistics, Brown University, Providence, USA.
Wenjing MaDepartment of Biostatistics, University of Michigan-Ann Arbor, Ann Arbor, USA.
Zhijin WuDepartment of Biostatistics, Brown University, Providence, USA. zhijin_wu@brown.edu.
Hao WuFaculty of Computer Science and Control Engineering, Shenzhen University of Advanced Technology, Shenzhen, China. wuhao@suat-sz.edu.cn.

Funding

Dissecting epitranscriptomic signal from complex tissuesR01GM141392 · NIGMS · EMORY UNIVERSITY · PI QIN, ZHAOHUI, WU, ZHIJIN JEAN · 2021 to 2024
$1.3M
National Natural Science Foundation of China W2431045NIGMS NIH HHS R01 GM141392NIH HHS R01GM141392Strategic Priority Research Program of Chinese Academy of Sciences XDB38050100
6 · The paper itself

Abstract

Cell-type identification is a crucial step in single cell RNA-seq (scRNA-seq) data analysis, for which supervised methods are preferred due to their accuracy and efficiency. Performance is highly dependent on the quality of the reference data, but there is no method for selecting and constructing reference data. We develop Target-Oriented Reference Construction (TORC), a widely applicable strategy for constructing reference data given a target dataset for scRNA-seq supervised cell-type identification. TORC alleviates the differences in data distribution and cell-type composition between reference and target. Extensive benchmarks on simulated and real data analyses demonstrate consistent improvements in cell-type identification from TORC.

Indexed as

RNA-SeqSequence Analysis, RNASingle-Cell AnalysisAnimalsHumansSingle-Cell Gene Expression AnalysisCell-type identificationReference constructionScRNA-seqSupervised learning

Identifiers

PMID40495172
PMCPMC12150436

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.