Evidence map›Paper›PMID 37314210›Full record

ArticlemSystems2023

Predicting variable gene content in

Marcus Nguyen, Zachary Elmore, Clay Ihle, Francesco S Moen, Adam D Slater, Benjamin N Turner, Bruce Parrello, Aaron A Best, James J Davis

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in mSystems, 2023. 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
0.2field-weighted citation impact, top 42% of its field
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 citations in OpenAlex.

  1. Predicting clinical outcome ofMicrobial genomics · 2025
    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

9 authors at 3 institutions in 1 country.

Marcus NguyenData Science and Learning Division, Argonne National Laboratory , Lemont, Illinois, USA.
Zachary ElmoreBiology Department, Hope College , Holland, Michigan, USA.
Clay IhleBiology Department, Hope College , Holland, Michigan, USA.
Francesco S MoenBiology Department, Hope College , Holland, Michigan, USA.ORCID 0000-0002-0961-3108
Adam D SlaterBiology Department, Hope College , Holland, Michigan, USA.
Benjamin N TurnerBiology Department, Hope College , Holland, Michigan, USA.
Bruce ParrelloConsortium for Advanced Science and Engineering, University of Chicago , Chicago, Illinois, USA.
Aaron A BestBiology Department, Hope College , Holland, Michigan, USA.ORCID 0000-0002-2799-5496
James J DavisData Science and Learning Division, Argonne National Laboratory , Lemont, Illinois, USA.ORCID 0000-0003-0104-5852
Hope College · USArgonne National Laboratory · USUniversity of Chicago · US

Funding

BIOINFORMATICS RESOURCE CENTERS FOR INFECTIOUS DISEASES: SARS-CoV-2 ACTIVITIES75N93019C00076 · NIAID · UNIVERSITY OF CHICAGO · PI STEVENS, RICK · 2019 to 2023
$32.6M
NIAID NIH HHS 75N93019C00076
6 · The paper itself

Abstract

Having the ability to predict the protein-encoding gene content of an incomplete genome or metagenome-assembled genome is important for a variety of bioinformatic tasks. In this study, as a proof of concept, we built machine learning classifiers for predicting variable gene content in

Indexed as

Anti-Infective AgentsEscherichia coli ProteinsEscherichia coliGenome, BacterialPlasmidsAnti-Infective AgentsEscherichia coli Proteinsantimicrobial resistancebacterial virulencehorizontal gene transfermachine learningphylogeny

Identifiers

PMID37314210
PMCPMC10469788
OpenAlexW4380576766

What OpenQuestion holds

Textmetadata
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.