Meconium microbiome associates with the development of neonatal jaundice/Experiment 1

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Aiyshaaaa, ChiomaBlessing, Chikamso, Joan Chuks

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: Meconium Meconium,meconium

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Neonatal jaundice neonatal hyperbilirubinemia,neonatal icterus,neonatal jaundice,Neonatal jaundice

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

Group 1 name Corresponds to the case (exposed) group for case-control studies: cesarean infants with jaundice

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

Group 0 sample size Number of subjects in the control (unexposed) group: 160

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): among all the participants,11 mothers used antibiotics during pregnancy and 4 infants used antibiotics after birth.

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

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

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

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool: 2.5

Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment: alcohol drinking, birth weight, gestational age, gestational diabetes, smoking behavior, maternal age, sex, Confounders controlled for: "subclinical hypothyroidism in pregnancy" 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.subclinical hypothyroidism in pregnancy, Confounders controlled for: "CDISC SDTM mode of delivery terminology" 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.CDISC SDTM mode of delivery terminology, Confounders controlled for: "feeding difficulties" 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.feeding difficulties, preterm premature rupture of the membranes