The Airway Microbiota Signatures of Infection and Rejection in Lung Transplant Recipients/Experiment 1

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Reviewed Marked as Reviewed by Peace Sandy on 2024-4-9

Curated date: 2024/03/20

Curator: Sidrakhan

Revision editor(s): Sidrakhan, Scholastica

Subjects

Location of subjects

China

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

Sputum Expectoration,Sputum,sputum

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

Lung transplantation lung transplant,transplant of lung,transplantation of lung,Lung transplantation,lung transplantation

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

Clinically stable (or event-free) recipients

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

Recipients with infection

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

Lung transplant recipients (LTRs) with infection

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

47

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

103

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

None

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

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).

relative abundances

Statistical test

LEfSe

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)?

Yes

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool

4

Alpha Diversity

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

unchanged