Evidence map›Paper›PMID 38557130›Full record

ArticlemSystems2024

Decoding host-microbiome interactions through co-expression network analysis within the non-human primate intestine.

Mika Uehara, Takashi Inoue, Sumitaka Hase, Erika Sasaki, Atsushi Toyoda, Yasubumi Sakakibara

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

Article in mSystems, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
1.4field-weighted citation impact, top 20% 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

6 citing papers in PubMed, 6 citations in OpenAlex.

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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

6 authors at 3 institutions in 1 country.

Mika UeharaDepartment of Biosciences and Informatics, Keio University, Yokohama, Kanagawa, Japan.ORCID 0000-0002-7407-1923
Takashi InoueDepartment of Marmoset Biology and Medicine, Central Institute for Experimental Animals, Kawasaki, Kanagawa, Japan.
Sumitaka HaseDepartment of Biosciences and Informatics, Keio University, Yokohama, Kanagawa, Japan.
Erika SasakiDepartment of Marmoset Biology and Medicine, Central Institute for Experimental Animals, Kawasaki, Kanagawa, Japan.
Atsushi ToyodaDepartment of Genomics and Evolutionary Biology, National Institute of Genetics, Mishima, Shizuoka, Japan.
Yasubumi SakakibaraDepartment of Biosciences and Informatics, Keio University, Yokohama, Kanagawa, Japan.ORCID 0000-0002-6932-3452
Keio University · JPCentral Institute for Experimental Animals · JPNational Institute of Genetics · JP

Funding

Japan Agency for Medical Research and Development (AMED) JP19gm6010006MEXT | Japan Science and Technology Agency (JST) JPMJCR20S3MEXT | Japan Society for the Promotion of Science (JSPS) JP20J21477
6 · The paper itself

Abstract

The gut microbiome affects the health status of the host through complex interactions with the host's intestinal wall. These host-microbiome interactions may spatially vary along the physical and chemical environment of the intestine, but these changes remain unknown. This study investigated these intricate relationships through a gene co-expression network analysis based on dual transcriptome profiling of different intestinal sites-cecum, transverse colon, and rectum-of the primate common marmoset. We proposed a gene module extraction algorithm based on the graph theory to find tightly interacting gene modules of the host and the microbiome from a vast co-expression network. The 27 gene modules identified by this method, which include both host and microbiome genes, not only produced results consistent with previous studies regarding the host-microbiome relationships, but also provided new insights into microbiome genes acting as potential mediators in host-microbiome interplays. Specifically, we discovered associations between the host gene

Indexed as

Gastrointestinal MicrobiomeGene Regulatory NetworksAlgorithmsAnimalsCallithrixGene Expression ProfilingHost Microbial InteractionsIntestinesTranscriptomecommon marmosetgut microbiomehost-microbiome interactionmetatranscriptomenetwork analysisnon-human primatetranscriptome

Identifiers

PMID38557130
PMCPMC11097647
OpenAlexW4393387290

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.