A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data | Paper Citation Record

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This paper cites How to get genomes at one ten-thousandth the cost,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data How to get genomes at one ten-thousandth the cost,

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This paper cites Microbiome multi-omics network analysis: Statistical considerations, limitations, and opportunities,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Microbiome multi-omics network analysis: Statistical considerations, limitations, and opportunities,

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This paper cites Evolution and measurement of species diversity,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Evolution and measurement of species diversity,

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This paper cites Inferring correlation networks from genomic survey data,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Inferring correlation networks from genomic survey data,

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This paper cites Microbial co-occurrence relationships in the human microbiome,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Microbial co-occurrence relationships in the human microbiome,

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This paper cites Untangling direct species associations from indirect mediator species effects with graphical models,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Untangling direct species associations from indirect mediator species effects with graphical models,

Reference 6

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This paper cites Novel whole yeast-based subunit oral vaccine against eimeria tenella in chickens,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Novel whole yeast-based subunit oral vaccine against eimeria tenella in chickens,

Reference 7

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This paper cites Investigating reproducibility and tracking provenance: A genomic workflow case study,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Investigating reproducibility and tracking provenance: A genomic workflow case study,

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This paper cites Nextflow enables reproducible computational workflows,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Nextflow enables reproducible computational workflows,

Reference 9

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This paper cites Evolutionary computation in bioinformatics: a review,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Evolutionary computation in bioinformatics: a review,

Reference 10

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This paper cites Defining the human microbiome,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Defining the human microbiome,

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This paper cites Benchmarking in cluster analysis: A white paper,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Benchmarking in cluster analysis: A white paper,

Reference 12

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This paper cites A comparative study of cluster detection algorithms in protein–protein interaction for drug target discovery and drug repurpos- ing,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data A comparative study of cluster detection algorithms in protein–protein interaction for drug target discovery and drug repurpos- ing,

Reference 13

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This paper cites Interaction strength promotes robustness against cascading effects in mutualistic networks,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Interaction strength promotes robustness against cascading effects in mutualistic networks,

Reference 14

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Drug target prioritization by perturbed gene expression and network information,

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This paper cites Walking the interactome for prioritization of candidate disease genes,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Walking the interactome for prioritization of candidate disease genes,

Reference 16

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This paper cites Meta-analysis of microbiome association networks reveal patterns of dysbiosis in diseased microbiomes,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Meta-analysis of microbiome association networks reveal patterns of dysbiosis in diseased microbiomes,

Reference 17

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This paper cites Gastric microbiota in a low–helicobacter pylori prevalence general population and their associations with gastric le- sions,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Gastric microbiota in a low–helicobacter pylori prevalence general population and their associations with gastric le- sions,

Reference 18

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This paper cites Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data,

Reference 19

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This paper cites Microbiome differential abundance methods produce different results across 38 datasets,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Microbiome differential abundance methods produce different results across 38 datasets,

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This paper cites Genetic risk for autoimmunity is associated with distinct changes in the human gut microbiome.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Genetic risk for autoimmunity is associated with distinct changes in the human gut microbiome

Reference 21

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This paper cites The statistical analysis of compositional data,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data The statistical analysis of compositional data,

Reference 22

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This paper cites Microbiome datasets are compositional: And this is not optional,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Microbiome datasets are compositional: And this is not optional,

Reference 23

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Assessment and selection of competing models for zero-inflated microbiome data,

Reference 24

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This paper cites mbdenoise: microbiome data denoising using zero-inflated probabilistic principal components analysis,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data mbdenoise: microbiome data denoising using zero-inflated probabilistic principal components analysis,

Reference 25

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This paper cites Identifying keystone species in the hu- man gut microbiome from metagenomic timeseries using sparse linear regression,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Identifying keystone species in the hu- man gut microbiome from metagenomic timeseries using sparse linear regression,

Reference 26

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This paper cites The analysis of zero-inflated count data: Beyond zero-inflated poisson regression.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data The analysis of zero-inflated count data: Beyond zero-inflated poisson regression

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Quantification of bacterial species of the vaginal microbiome in different groups of women, using nucleic acid amplification tests,

Reference 28

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Sparse and compositionally robust inference of microbial ecological networks,

Reference 29

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data High-dimensional graphs and vari- able selection with the lasso,

Reference 30

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Central limit theorem: the cornerstone of modern statistics,

Reference 31

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Defining higher-order interactions in synthetic ecology: Lessons from physics and quantitative genetics,

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Filling key gaps in population and community ecology,

Reference 33

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Beyond the venn diagram: the hunt for a core microbiome,

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data The ecology of the microbiome: networks, competition, and stability,

Reference 35

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data The human microbiome project,

Reference 36

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This paper cites Re-calculating the cost of coccidiosis in chickens,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Re-calculating the cost of coccidiosis in chickens,

Reference 37

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Dada2: High resolution sample inference from amplicon data,

Reference 38

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Provenance and scientific workflows: challenges and opportunities,

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This paper cites Docker: lightweight linux containers for consistent devel- opment and deployment,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Docker: lightweight linux containers for consistent devel- opment and deployment,

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Singularity: Scientific containers for mobility of compute,

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Andrews, FastQC

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A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data high-speed fastqc emulation for quality control of sequencing data,

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This paper cites Cutadapt removes adapter sequences from high-throughput sequencing reads,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Cutadapt removes adapter sequences from high-throughput sequencing reads,

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This paper cites Bolyen et al.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Bolyen et al

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This paper cites Optimizing taxonomic classification of marker-gene amplicon sequences with qiime 2 q2-feature-classifier plugin,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Optimizing taxonomic classification of marker-gene amplicon sequences with qiime 2 q2-feature-classifier plugin,

Reference 46

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This paper cites a versatile open source tool for metagenomics,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data a versatile open source tool for metagenomics,

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This paper cites The silva ribosomal rna gene database project: improved data processing and web-based tools,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data The silva ribosomal rna gene database project: improved data processing and web-based tools,

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This paper cites Cytoscape: A software environment for integrated models of biomolecular interaction networks,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Cytoscape: A software environment for integrated models of biomolecular interaction networks,

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This paper cites Clustering by passing messages between data points,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Clustering by passing messages between data points,

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This paper cites Glay: community structure analysis of biological networks,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Glay: community structure analysis of biological networks,

Reference 51

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Observation bc1b7e3e-8499-4842-b9e8-9de02951b6f9 · outbound

This paper cites High-dimensional graphs and variable selection with the lasso,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data High-dimensional graphs and variable selection with the lasso,

Reference 52

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Observation c2dd7039-79fc-4ca4-9139-520aaf91b5fa · outbound

This paper cites Sparse inverse covariance estimation with the graphical lasso,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Sparse inverse covariance estimation with the graphical lasso,

Reference 53

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Observation 92882a84-0a8f-4375-960d-e2e9598ae868 · outbound

This paper cites Stability approach to regular- ization selection (stars) for high dimensional graphical models,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Stability approach to regular- ization selection (stars) for high dimensional graphical models,

Reference 54

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T22:11:56.723820Z

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Observation 61e1f431-9bea-4558-a5c9-c5e65653b2bc · outbound

This paper cites Effects of eimeria tenella infection on chicken caecal microbiome diversity, exploring variation associated with severity of pathology,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Effects of eimeria tenella infection on chicken caecal microbiome diversity, exploring variation associated with severity of pathology,

Reference 55

Resolution: verified exact; doi, observed 2026-08-11T22:11:55.987562Z

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Observation c25960d4-b7db-4901-b6d3-e6115b374759 · outbound

This paper cites On some properties of the bray-curtis dissimilarity and their ecological meaning,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data On some properties of the bray-curtis dissimilarity and their ecological meaning,

Reference 56

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T22:11:56.695695Z

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Observation dd7fd719-8a16-4ad0-a5b8-55f035778f57 · outbound

This paper cites Estimating the number of clusters in a data set via the gap statistic,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Estimating the number of clusters in a data set via the gap statistic,

Reference 57

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Observation 24aa406c-0bab-4388-be5d-d0cba0d05344 · outbound

This paper cites Umap: Uniform manifold approximation and projection for dimension reduction,.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Umap: Uniform manifold approximation and projection for dimension reduction,

Reference 58

Resolution: verified fuzzy; raw_fallback, observed 2026-08-11T22:11:56.674508Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-22T06:32:14.747728+00:00.

Observation ca7c4263-d63e-457d-8637-e6b77788479f · outbound

This paper cites Available: http://dx.doi.org/10.1101/gr.1239303.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Available: http://dx.doi.org/10.1101/gr.1239303

Reference 2003

Resolution: unresolved; no resolver link, observed 2026-08-11T22:11:55.894701Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 60d64fb6-be3a-4558-9b00-05f628d4205c · outbound

This paper cites Available: https://doi.org/10.1371/journal.pcbi.1004226.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Available: https://doi.org/10.1371/journal.pcbi.1004226

Reference 2015

Resolution: unresolved; no resolver link, observed 2026-08-11T22:11:55.771934Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 3677d64b-bb4c-475a-beb2-8fce0f4a44a2 · outbound

This paper cites Available: https://doi.org/10.1111/2041-210X.13247.

A novel approach to differential expression analysis of co-occurrence networks for small-sampled microbiome data Available: https://doi.org/10.1111/2041-210X.13247

Reference 2019

Resolution: unresolved; no resolver link, observed 2026-08-11T22:11:55.640272Z

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Unavailable: canonical work link unavailable.

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