Correlation and association analyses in microbiome study integrating multiomics in health and disease

Y Xia - Progress in molecular biology and translational …, 2020 - Elsevier
Correlation and association analyses are one of the most widely used statistical methods in
research fields, including microbiome and integrative multiomics studies. Correlation and …

Experimental design and quantitative analysis of microbial community multiomics

H Mallick, S Ma, EA Franzosa, T Vatanen, XC Morgan… - Genome biology, 2017 - Springer
Studies of the microbiome have become increasingly sophisticated, and multiple sequence-
based, molecular methods as well as culture-based methods exist for population-scale …

[HTML][HTML] Impact and effectiveness of mRNA BNT162b2 vaccine against SARS-CoV-2 infections and COVID-19 cases, hospitalisations, and deaths following a …

EJ Haas, FJ Angulo, JM McLaughlin, E Anis, SR Singer… - The Lancet, 2021 - thelancet.com
Background Following the emergency use authorisation of the Pfizer–BioNTech mRNA
COVID-19 vaccine BNT162b2 (international non-proprietary name tozinameran) in Israel …

Air pollution and COVID-19 mortality in the United States: Strengths and limitations of an ecological regression analysis

X Wu, RC Nethery, MB Sabath, D Braun… - Science advances, 2020 - science.org
Assessing whether long-term exposure to air pollution increases the severity of COVID-19
health outcomes, including death, is an important public health objective. Limitations in …

Exposure to air pollution and COVID-19 mortality in the United States: A nationwide cross-sectional study

X Wu, RC Nethery, MB Sabath, D Braun, F Dominici - MedRxiv, 2020 - medrxiv.org
Abstract Objectives United States government scientists estimate that COVID-19 may kill
tens of thousands of Americans. Many of the pre-existing conditions that increase the risk of …

Multivariable association discovery in population-scale meta-omics studies

H Mallick, A Rahnavard, LJ McIver, S Ma… - PLoS computational …, 2021 - journals.plos.org
It is challenging to associate features such as human health outcomes, diet, environmental
conditions, or other metadata to microbial community measurements, due in part to their …

[HTML][HTML] Modeling microbial abundances and dysbiosis with beta-binomial regression

BD Martin, D Witten, AD Willis - The annals of applied statistics, 2020 - ncbi.nlm.nih.gov
Using a sample from a population to estimate the proportion of the population with a certain
category label is a broadly important problem. In the context of microbiome studies, this …

NEBULA is a fast negative binomial mixed model for differential or co-expression analysis of large-scale multi-subject single-cell data

L He, J Davila-Velderrain, TS Sumida… - Communications …, 2021 - nature.com
The increasing availability of single-cell data revolutionizes the understanding of biological
mechanisms at cellular resolution. For differential expression analysis in multi-subject single …

Statistical challenges in longitudinal microbiome data analysis

S Kodikara, S Ellul, KA Lê Cao - Briefings in Bioinformatics, 2022 - academic.oup.com
The microbiome is a complex and dynamic community of microorganisms that co-exist
interdependently within an ecosystem, and interact with its host or environment. Longitudinal …

Overview of data preprocessing for machine learning applications in human microbiome research

E Ibrahimi, MB Lopes, X Dhamo, A Simeon… - Frontiers in …, 2023 - frontiersin.org
Although metagenomic sequencing is now the preferred technique to study microbiome-host
interactions, analyzing and interpreting microbiome sequencing data presents challenges …