ReviewBriefings in bioinformatics2021
Network analyses in microbiome based on high-throughput multi-omics data.
Review in Briefings in bioinformatics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers, 1 of them a synthesis that pooled 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.
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.
Who cites it
50 citing papers in PubMed, 1 synthesis or guideline pooled it, 93 citations in OpenAlex.
- Distinct Features Based on Partitioning of the Endophytic Fungi of Cereals and Other Grasses.Microbiology spectrum · 2023Pooled it
- From Identification to Enzymatic Activity Profiling: Comprehensive Characterization of BloCAβ, a Probiotic β-Carbonic Anhydrase From Bifidobacterium longum.Archiv der Pharmazie · 2026Article
- MetagenomicKG: a knowledge graph for metagenomic applications.Bioinformatics (Oxford, England) · 2026Article
- Navigating multi-omic integration methods for human microbiome research.Nature microbiology · 2026Review
- Multivariate Regression With Dependence Structures: Evaluating Associations Between Plasma Metabolomics and Alcohol Intake in Older Adults.Statistics in medicine · 2026Article
- Bacterial communities show distinctive spatial diversity patterns in productive truffle orchards amended with peat-based substrate.Environmental microbiome · 2026Article
- Deciphering gut microbial impact in coronary artery disease through multimodal computational approaches.BMC microbiology · 2025Article
- The Human Archaeome: Commensals, Opportunists, or Emerging Pathogens?Pathogens (Basel, Switzerland) · 2025Review
- Integrative systems biology approaches for analyzing microbiome dysbiosis and species interactions.Briefings in bioinformatics · 2025Review
- New groups of highly divergent proteins in families as old as cellular life with important biological functions in the ocean.Environmental microbiome · 2025Article
- Compositional and functional gut microbiota alterations in mild cognitive impairment: links to Alzheimer's disease pathology.Alzheimer's research & therapy · 2025Article
- Integrating microbial GWAS and single-cell transcriptomics reveals associations between host cell populations and the gut microbiome.Nature microbiology · 2025Article
- Pathway-Specific Insights into Colorectal Cancer Through Comprehensive Multi-Omics Data Integration.Biology · 2025Article
- Tiny but mighty? Overview of a decade of research on nectar bacteria.The New phytologist · 2025Review
- Approaches to dissect the vitamin biosynthetic network of the gut microbiota.Microbiome research reports · 2025Review
- mbDriver: identifying driver microbes in microbial communities based on time-series microbiome data.Briefings in bioinformatics · 2024Article
- Exploration of the Changes in Facial Microbiota of Maskne Patients and Healthy Controls Before and After Wearing Masks Using 16 S rRNA Analysis.Journal of epidemiology and global health · 2024Article
- Review
- Therapeutic and diagnostic applications of exosomes in colorectal cancer.Medical oncology (Northwood, London, England) · 2024Review
- Microbial co-occurrence network demonstrates spatial and climatic trends for global soil diversity.Scientific data · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Together with various hosts and environments, ubiquitous microbes interact closely with each other forming an intertwined system or community. Of interest, shifts of the relationships between microbes and their hosts or environments are associated with critical diseases and ecological changes. While advances in high-throughput Omics technologies offer a great opportunity for understanding the structures and functions of microbiome, it is still challenging to analyse and interpret the omics data. Specifically, the heterogeneity and diversity of microbial communities, compounded with the large size of the datasets, impose a tremendous challenge to mechanistically elucidate the complex communities. Fortunately, network analyses provide an efficient way to tackle this problem, and several network approaches have been proposed to improve this understanding recently. Here, we systemically illustrate these network theories that have been used in biological and biomedical research. Then, we review existing network modelling methods of microbial studies at multiple layers from metagenomics to metabolomics and further to multi-omics. Lastly, we discuss the limitations of present studies and provide a perspective for further directions in support of the understanding of microbial communities.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.