Consensus and single-method networks inferred on the liver cirrhosis dataset, followed by CORE-clustering algorithm to identify the microbial guilds.

Consensus and single-method networks inferred on the liver cirrhosis dataset, followed by CORE-clustering algorithm to identify the microbial guilds.

<p>All graphs share the same layout, computed on the OneNet-mean network, to ease comparisons. Nodes are colored by cluster, with red always used for the cirrhotic guild in all graphs where it is (at least partially) recovered and species prevalent in the oral cavity are represented by a trian...

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التفاصيل البيبلوغرافية
المؤلف الرئيسي:	Camille Champion (15238934) (author)
مؤلفون آخرون:	Raphaëlle Momal (16035125) (author), Emmanuelle Le Chatelier (28764) (author), Mathilde Sola (20396472) (author), Mahendra Mariadassou (197789) (author), Magali Berland (10072345) (author)
منشور في:	2024
الموضوعات:	Microbiology Genetics Molecular Biology Infectious Diseases Biological Sciences not elsewhere classified Mathematical Sciences not elsewhere classified Information Systems not elsewhere classified several statistically grounded resulting network exhibited onenet &# 8212 gut microbiome data microbial communities influence stability selection framework slightly sparser networks method generally led consensus network inference stability selection synthetic data present onenet one network inferred network microbial species microbial guild microbial ecology single method resampling procedure reproducible networks reproducible edges regularization parameter often edges major challenge existing methods direct interactions different networks cirrothic patients
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مواد مشابهة

Consensus network inferred on the healthy individuals (n = 102 samples, p = 151 species) from the liver cirrhosis dataset, followed by CORE-clustering algorithm to identify the microbial guilds.
حسب: Camille Champion (15238934)
منشور في: (2024)

Upset plots of the edges identified by the inference methods and the OneNet-* variants applied to the liver cirrhosis dataset.
حسب: Camille Champion (15238934)
منشور في: (2024)

Detailed view of the cirrhotic guild identified in the OneNet-mean network with taxonomic information on the nodes.
حسب: Camille Champion (15238934)
منشور في: (2024)

Quality of consensus networks (MRC and OneNet consensus) in terms of PPV/TPR assessed on simulated datasets of size <i>n</i> = 100 samples.
حسب: Camille Champion (15238934)
منشور في: (2024)

Characteristics of the network inference methods.
حسب: Camille Champion (15238934)
منشور في: (2024)

The classical network inference pipeline.
حسب: Camille Champion (15238934)
منشور في: (2024)

Precision—Recall curves of each inference method for different sample sizes.
حسب: Camille Champion (15238934)
منشور في: (2024)

Quality of both single-method and consensus network in terms of PPV/TPR assessed on 20 simulated datasets of size <i>n</i> = 100 samples.
حسب: Camille Champion (15238934)
منشور في: (2024)

Upset plot of the edges identified by the inference methods, the OneNet-* variants and the ground truth on the synthetic dataset for <i>n</i> = 500.
حسب: Camille Champion (15238934)
منشور في: (2024)

Upset plot of the edges identified by the inference methods, the OneNet-* variants and the ground truth on the synthetic dataset for <i>n</i> = 100.
حسب: Camille Champion (15238934)
منشور في: (2024)

Stability—Density curves of the edge set <i>E</i><sup>λ</sup>(0.90) according to the sample size and inference method.
حسب: Camille Champion (15238934)
منشور في: (2024)

PPV—Density and TPR—Density curves of the edge set <i>E</i><sup>λ</sup>(0.90) according to the sample size and inference method.
حسب: Camille Champion (15238934)
منشور في: (2024)

PPV—Stability and TPR—Stability curves of the edge set <i>E</i><sup>λ</sup>(0.90) according to the sample size and inference method.
حسب: Camille Champion (15238934)
منشور في: (2024)

Compared precision (PPV) and recall (TPR) of inference methods and OneNet-* variants when including all 7 methods in the set of methods, for different samples sizes.
حسب: Camille Champion (15238934)
منشور في: (2024)

Compared precision (PPV) and recall (TPR) of inference methods and OneNet-* variants after removing glasso-based methods from the set of methods, for different samples sizes.
حسب: Camille Champion (15238934)
منشور في: (2024)

Precision—Recall curves of each inference method before equalizing the densities and TPR/PPV value obtained for λ<sup>*</sup> corresponding to default stability criteria shown with a square (<i>n</i> = 100).
حسب: Camille Champion (15238934)
منشور في: (2024)

High level summary of the OneNet pipeline.
حسب: Camille Champion (15238934)
منشور في: (2024)

Precision—Recall curves of each method and TPR/PPV compromise chosen by stability, mean stability and BIC when <i>n</i> = 100 after filtering the dataset to keep only species with prevalence higher than a given threshold.
حسب: Camille Champion (15238934)
منشور في: (2024)

Precision—Recall curves of each method and TPR/PPV compromise chosen by stability, mean stability and BIC when <i>n</i> = 1000 after filtering the dataset to keep only species with prevalence higher than a given threshold.
حسب: Camille Champion (15238934)
منشور في: (2024)

Precision—Recall curves of each method and TPR/PPV compromise chosen by stability, mean stability and BIC when <i>n</i> = 500 after filtering the dataset to keep only species with prevalence higher than a given threshold.
حسب: Camille Champion (15238934)
منشور في: (2024)

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منشور في: (2025)

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