Large-scale metagenomic analysis of oral microbiomes reveals markers for autism spectrum disorders/Experiment 1
From BugSigDB
Needs review
Subjects
- Location of subjects
- United States of America
- 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
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Autism spectrum disorder atypical autism,autism spectrum disease,autism spectrum disorder,Autism Spectrum Disorders,autistic spectrum disorder,CHILD DEVELOPMENT DIS PERVASIVE,Child Development Disorders, Pervasive,Development Disorder, Pervasive,Development Disorders, Pervasive,Disorder, Autism Spectrum,Disorder, Pervasive Development,Disorders, Autism Spectrum,Disorders, Pervasive Development,PDD,PERVASIVE CHILD DEVELOPMENT DIS,Pervasive Child Development Disorders,Pervasive Development Disorder,Pervasive Development Disorders,pervasive developmental disorder - not otherwise specified,pervasive developmental disorders,Spectrum Disorder, Autism,Spectrum Disorders, Autism,Autism spectrum disorder
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Neurotypical Siblings(NTs)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Autism Spectrum Disorders Children (ASD Children)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Autism Spectrum Disorders Children (ASD Children) refers to children who show repetitive behaviours and sensory hyper-sensibility.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 1646
- Group 1 sample size Number of subjects in the case (exposed) group
- 2154
Lab analysis
- Sequencing type
- WMS
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- 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).
- centered log-ratio
- Statistical test
- Linear Regression
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.005
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, sex, sequence read depth, Confounders controlled for: "genetic ancestry of the individuals" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.genetic ancestry of the individuals
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Supplementary Data 3, 5
Description: Differentially abundant taxa in oral samples between Autism Spectrum Disorders children and Neurotypical Siblings..
Abundance in Group 1: increased abundance in Autism Spectrum Disorders Children (ASD Children)
Revision editor(s): KateRasheed
Signature 2
Needs review
Source: Supplementary Data 3, 5
Description: Differentially abundant taxa in oral samples between Autism Spectrum Disorders children and Neurotypical Siblings..
Abundance in Group 1: decreased abundance in Autism Spectrum Disorders Children (ASD Children)
Revision editor(s): KateRasheed
