Datasets collected by high-throughput sequencing (HTS) of 16S rRNA gene amplimers,
metagenomes or metatranscriptomes are commonplace and being used to study human …

Correlation and association analyses are one of the most widely used statistical methods in
research fields, including microbiome and integrative multiomics studies. Correlation and …

Background Experimental designs that take advantage of high-throughput sequencing to
generate datasets include RNA sequencing (RNA-seq), chromatin immunoprecipitation …

Surveys of microbial communities (microbiota), typically measured as relative abundance of
species, have illustrated the importance of these communities in human health and disease …

Data on absolute molecule numbers will empower the modeling, understanding, and
comparison of cellular functions and biological systems. We quantified transcriptomes and …

In the approach to compositional data analysis originated by John Aitchison, a set of linearly
independent logratios (ie, ratios of compositional parts, logarithmically transformed) explains …

Background Artificial gut models provide unique opportunities to study human-associated
microbiota. Outstanding questions for these models' fundamental biology include the …

Evaluating the causes and consequences of dominance by a limited number of taxa in
phytoplankton communities is of huge importance in the current context of increasing …

Correlation is ubiquitously used in gene expression analysis although its validity as an
objective criterion is often questionable. If no normalization reflecting the original mRNA …

Tissue analysis is commonly used in ecology and agronomy to portray plant nutrient
signatures. Nutrient concentration data, or ionomes, belong to the compositional data class …