ArticleMethods in molecular biology (Clifton, N.J.)2018
Transkingdom Networks: A Systems Biology Approach to Identify Causal Members of Host-Microbiota Interactions.
Article in Methods in molecular biology (Clifton, N.J.), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 1 of them a synthesis that pooled it.
What it found
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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
26 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Intestinal microbiota signatures of clinical response and immune-related adverse events in melanoma patients treated with anti-PD-1.Nature medicine · 2022Pooled it
- Fecal microbiota transplant overcomes resistance to anti-PD-1 therapy in melanoma patients.Science (New York, N.Y.) · 2021Trial
- Integrative Epigenomics: Bioinformatics Strategies for Multi-Omics Data Analysis in Health and Disease.Epigenomes · 2026Review
- Wheat Rhizosphere Bacterial Community Response to Bromus tectorum (L.) and Fusarium pseudograminearum Crown Rot.Microbial ecology · 2026Article
- Integrating multi-omics data: Methods and applications in human complex diseases.Biotechnology reports (Amsterdam, Netherlands) · 2025Review
- Article
- PhenoMultiOmics: an enzymatic reaction inferred multi-omics network visualization web server.Bioinformatics (Oxford, England) · 2024Article
- Statistical and computational methods for integrating microbiome, host genomics, and metabolomics data.eLife · 2024Review
- Host response to cholestyramine can be mediated by the gut microbiota.Microbiome research reports · 2024Article
- Article
- Omics and systems view of innate immune pathways.Proteomics · 2023Review
- Microbial mechanisms to improve immune checkpoint blockade responsiveness.Neoplasia (New York, N.Y.) · 2022Article
- Using Community Ecology Theory and Computational Microbiome Methods To Study Human Milk as a Biological System.mSystems · 2022Review
- The Gut Microbiota in Inflammatory Bowel Disease.Frontiers in cellular and infection microbiology · 2022Review
- Unsupervised Multi-Omics Data Integration Methods: A Comprehensive Review.Frontiers in genetics · 2022Review
- Microbiota triggers STING-type I IFN-dependent monocyte reprogramming of the tumor microenvironment.Cell · 2021Article
- The Modulation of Gut Microbiota Composition in the Pathophysiology of Gestational Diabetes Mellitus: A Systematic Review.Biology · 2021Review
- Holo-omics for deciphering plant-microbiome interactions.Microbiome · 2021Review
- Transkingdom interactions between Lactobacilli and hepatic mitochondria attenuate western diet-induced diabetes.Nature communications · 2021Article
- Transkingdom network analysis provides insight into host-microbiome interactions in Atlantic salmon.Computational and structural biotechnology journal · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Improvements in sequencing technologies and reduced experimental costs have resulted in a vast number of studies generating high-throughput data. Although the number of methods to analyze these "omics" data has also increased, computational complexity and lack of documentation hinder researchers from analyzing their high-throughput data to its true potential. In this chapter we detail our data-driven, transkingdom network (TransNet) analysis protocol to integrate and interrogate multi-omics data. This systems biology approach has allowed us to successfully identify important causal relationships between different taxonomic kingdoms (e.g., mammals and microbes) using diverse types of data.
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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.