Evidence map›Paper›PMID 41129198›Full record

ArticleMicrobial genomics2025

CoDing Sequence Typer (CDST): a fast, simple, decentralized and interoperable solution for bacterial genomic typing and clustering.

Menghan Li, Séamus Fanning, Zhemin Zhou, Li Bai

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microbial genomics, 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. A MarineMarine drugs · 2026
    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

4 authors.

Menghan LiNational Health Commission Key Laboratory of Food Safety Risk Assessment, China National Center for Food Safety Risk Assessment, Beijing 100021, PR China.
Séamus FanningNational Health Commission Key Laboratory of Food Safety Risk Assessment, China National Center for Food Safety Risk Assessment, Beijing 100021, PR China.
Zhemin ZhouThe Second Affiliated Hospital of Soochow University, Cancer Institute, Suzhou Medical College, Soochow University, Suzhou 215127, PR China.
Li BaiNational Health Commission Key Laboratory of Food Safety Risk Assessment, China National Center for Food Safety Risk Assessment, Beijing 100021, PR China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

We present a fully decentralized MD5 hash-based framework that indexes predicted coding sequences (CDSs) and computes pairwise genomic distances without locus annotation or a central database. The method is implemented in the open-source CoDing Sequence Typer (CDST) pipeline, which delivers reproducible, privacy-preserving and computationally efficient bacterial typing. Applied to 1,961 complete

Indexed as

Bacterial Typing TechniquesGenome, BacterialMultilocus Sequence TypingSalmonella entericaCluster AnalysisGenomicsHumansOpen Reading FramesSoftwarebacteria genome typingcore-genome multilocus sequence typing (cgMLST)outbreak surveillanceSalmonella enterica

Identifiers

PMID41129198
PMCPMC12548756

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.