Evidence map›Paper›PMID 41171841›Full record

ArticleAnalytical chemistry2025

SMART 2.0 Statistical Metabolomics Analysis: An R Tool 2.0.

Yu-Jen Liang, Chih-Ting Yang, Chia-Wei Chen, Yin-Chun Lin, Shu-Yao Lin, Yi Sheng Wang, Hsin-Chou Yang

Abstract read
In one paragraph

Article in Analytical chemistry, 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. 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.

Yu-Jen LiangInstitute of Statistical Science, Academia Sinica, Taipei 115, Taiwan.
Chih-Ting YangInstitute of Statistical Science, Academia Sinica, Taipei 115, Taiwan.
Chia-Wei ChenInstitute of Statistical Science, Academia Sinica, Taipei 115, Taiwan.
Yin-Chun LinInstitute of Statistical Science, Academia Sinica, Taipei 115, Taiwan.
Shu-Yao LinAgricultural Biotechnology Research Center, Academia Sinica, Taipei 115, Taiwan.
Yi Sheng WangGenomics Research Center, Academia Sinica, Taipei 115, Taiwan.ORCID 0000-0002-8640-8941
Hsin-Chou YangInstitute of Statistical Science, Academia Sinica, Taipei 115, Taiwan.ORCID 0000-0001-6853-7881

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Metabolomics has experienced significant growth and increased popularity due to technological advancements. We introduced an integrated tool for untargeted metabolomics analysis, SMART 1.0, that streamlined the entire analysis process, from initial data preprocessing to subsequent association analysis. With SMART 2.0, we enhanced SMART 1.0 by introducing new analytical modules in targeted metabolomics analysis, data normalization, quality control assessment, and advanced dimensionality reduction and classification methods. Additionally, SMART 2.0 offers integrative omics pathway analysis and postanalysis tasks such as peak identification and concentration calibration. We also explored the potential of using large language models for peak annotation and have found the results to be promising. This study employs narcotics data and breast cancer data as demonstrative examples to illustrate the new functionalities. The codes, a user guide, and example data can be downloaded at https://github.com/YuJenL/SMART.

Indexed as

MetabolomicsSoftwareBreast NeoplasmsHumans

Identifiers

PMID41171841
PMCPMC12658861

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.