The Human Mesenteric Lymph Node Microbiome Differentiates Between Crohn's Disease and Ulcerative Colitis/Experiment 1

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Reviewed Marked as Reviewed by Rimsha Azhar on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects

Ireland

Host species Species from which microbiome was sampled. Contact us to have more species added.

Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology

Mesenteric lymph node Mesenteric node,Nodi lymphoidei mesenterici,Mesenteric lymph node,mesenteric lymph node

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Inflammatory bowel disease autoimmune bowel disorder,Bowel Diseases, Inflammatory,IBD,INFLAMM BOWEL DIS,inflammatory bowel disease,Inflammatory Bowel Diseases,Inflammatory bowel disease

Group 0 name Corresponds to the control (unexposed) group for case-control studies

Ulcerative colitis

Group 1 name Corresponds to the case (exposed) group for case-control studies

Crohn's disease

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

histopathologivally diagnosed ulcerative colitis and crohn's disease

Group 0 sample size Number of subjects in the control (unexposed) group

8

Group 1 sample size Number of subjects in the case (exposed) group

5

Lab analysis

Sequencing type

16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

Illumina

Statistical Analysis

Statistical test

Mann-Whitney (Wilcoxon)

Significance threshold p-value or FDR threshold used for differential abundance testing (if any)

0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?

No

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness

decreased

Chao1 Abundance-based estimator of species richness

increased

Richness Number of species

increased

Signature 1

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Reviewed Marked as Reviewed by Rimsha Azhar on 2021/02/09

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks

Source: Figure 3B

Description: Abundance of phyla in MLN of crohn's disease (CD) and ulcerative colitis (UC) patients

Abundance in Group 1: increased abundance in Crohn's disease

NCBI	Quality Control	Links
Pseudomonadota

Revision editor(s): WikiWorks