The Ontology of Biological and Clinical Statistics (OBCS)-based statistical
method standardization and meta-analysis of host responses to yellow fever
vaccines
#MMPMID30034908
Zheng J
; Li H
; Liu Q
; He Y
Quant Biol
2017[Dec]; 5
(4
): 291-301
PMID30034908
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BACKGROUND: The community-based Ontology of Biological and Clinical Statistics
(OBCS) represents and standardizes biological and clinical data and statistical
methods. METHODS: Both OBCS and the Vaccine Ontology (VO) were used to
ontologically model various components and relations in a typical host response
to vaccination study. Such a model was then applied to represent and compare
three microarray studies of host responses to the yellow fever vaccine YF-17D. A
literature meta-analysis was then conducted to survey yellow fever vaccine
response papers and summarize statistical methods, using OBCS. RESULTS: A general
ontological model was developed to identify major components in a typical host
response to vaccination. Our ontology modeling of three similar studies
identified common and different components which may contribute to varying
conclusions. Although these three studies all used the same vaccine, human blood
samples, similar sample collection time post vaccination, and microarray assays,
statistically differentially expressed genes and associated gene functions
differed, likely due to the differences in specific variables (e.g., microarray
type and human variations). Our manual annotation of 95 papers in human responses
to yellow fever vaccines identified 38 data analysis methods. These statistical
methods were consistently represented and classified with OBCS. Eight statistical
methods not available in existing ontologies were added to OBCS. CONCLUSIONS: The
study represents the first single use case of applying OBCS ontology to
standardize, integrate, and use biomedical data and statistical methods. Our
ontology-based meta-analysis showed that different experimental results might be
due to different experimental assays and conditions, sample variations, and data
analysis methods.
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